******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.12.0 (Release date: Tue Jun 27 16:22:50 2017 -0700) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme-suite.org . 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-suite.org . ******************************************************************************** ******************************************************************************** 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. ******************************************************************************** ******************************************************************************** ALPHABET "DNA with covalent modifications" ******************************************************************************** A "Adenine" 8510A8 ~ T "Thymine" A89610 C "Cytosine" A50026 ~ G "Guanine" 313695 c "5-Carboxylcytosine" FEE090 ~ 4 "Guanine:5-Carboxylcytosine" E0F3F8 f "5-Formylcytosine" FDAE61 ~ 3 "Guanine:5-Formylcytosine" ABD9E9 h "5-Hydroxymethylcytosine" F46D43 ~ 2 "Guanine:5-Hydroxymethylcytosine" 74ADD1 m "5-Methylcytosine" D73027 ~ 1 "Guanine:5-Methylcytosine" 4575B4 ? = ACGTcfhm1234 z = Ccfhm 9 = G1234 N = ACGT X = ACGT V = ACG H = ACT D = AGT B = CGT y = Ccf 8 = G34 M = AC R = AG W = AT S = CG Y = CT K = GT x = hm 7 = 12 ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** DATAFILE= common/crp0.s Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ ce1cg 1.0000 105 ara 1.0000 105 bglr1 1.0000 105 crp 1.0000 105 cya 1.0000 105 deop2 1.0000 105 gale 1.0000 105 ilv 1.0000 105 lac 1.0000 105 male 1.0000 105 malk 1.0000 105 malt 1.0000 105 ompa 1.0000 105 tnaa 1.0000 105 uxu1 1.0000 105 pbr322 1.0000 105 trn9cat 1.0000 105 tdc 1.0000 105 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -oc results/motif.meme.crp0.extdna -nostatus -alph common/extended_dna.alph -nmotifs 3 common/crp0.s model: mod= zoops nmotifs= 3 evt= inf object function= E-value of product of p-values width: minw= 8 maxw= 50 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 18 wnsites= 0.8 theta: 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= 1890 N= 18 shuffle= -1 strands: + sample: seed= 0 ctfrac= -1 maxwords= -1 Letter frequencies in dataset: A 0.303 C 0.183 G 0.209 T 0.306 c 0.000 f 0.000 h 0.000 m 0.000 1 0.000 2 0.000 3 0.000 4 0.000 Background letter frequencies (from dataset with add-one prior applied): A 0.301 C 0.182 G 0.208 T 0.304 c 0.001 f 0.001 h 0.001 m 0.001 1 0.001 2 0.001 3 0.001 4 0.001 ******************************************************************************** ******************************************************************************** MOTIF TGTGANNKAGNTCACAHWW MEME-1 width = 19 sites = 17 llr = 178 E-value = 3.6e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTGANNKAGNTCACAHWW MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::29421512:1818254 pos.-specific C 211:1242:2319:913:1 probability G :8:8:2242522:1:11:: matrix T 8291:32322471111456 c ::::::::::::::::::: f ::::::::::::::::::: h ::::::::::::::::::: m ::::::::::::::::::: 1 ::::::::::::::::::: 2 ::::::::::::::::::: 3 ::::::::::::::::::: 4 ::::::::::::::::::: bits 10.9 9.8 8.7 7.6 Relative 6.5 Entropy 5.4 (15.1 bits) 4.4 3.3 2.2 * * 1.1 ***** ***** * 0.0 ------------------- Multilevel TGTGAACGAGTTCACATTT consensus TATGCC CAA sequence G T A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGANNKAGNTCACAHWW MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------- lac 12 2.85e-07 ACGCAATTAA TGTGAGTTAGCTCACTCAT TAGGCACCCC ompa 51 4.06e-07 TTTTCATATG CCTGACGGAGTTCACACTT GTAAGTTTTC male 17 4.06e-07 CCGCCAATTC TGTAACAGAGATCACACAA AGCGACGGTG tdc 81 5.72e-07 AAAGTTAATT TGTGAGTGGTCGCACATAT CCTGTT pbr322 56 9.85e-07 CCATATGCGG TGTGAAATACCGCACAGAT GCGTAAGGAG tnaa 74 1.65e-06 CCCGAACGAT TGTGATTCGATTCACATTT AAACAATTTC deop2 10 2.01e-06 AGTGAATTA TTTGAACCAGATCGCATTA CAGTGATGCA ara 58 2.01e-06 ACATTGATTA TTTGCACGGCGTCACACTT TGCTATGCCA ce1cg 64 2.67e-06 AGACTGTTTT TTTGATCGTTTTCACAAAA ATGGAAGTCC crp 66 4.24e-06 ACTGCATGTA TGCAAAGGACGTCACATTA CCGTGCAGTA bglr1 79 4.63e-06 AGTTAATAAC TGTGAGCATGGTCATATTT TTATCAAT gale 27 1.17e-05 TAAATTCTTG TGTAAACGATTCCACTAAT TTATTCCATG uxu1 20 1.87e-05 GTGAAATTGT TGTGATGTGGTTAACCCAA TTAGAATTCG ilv 42 1.87e-05 CAGTACAAAA CGTGATCAACCCCTCAATT TTCCCTTTGC malt 44 2.01e-05 GATTTGGAAT TGTGACACAGTGCAAATTC AGACACATAA cya 53 2.91e-05 ATCAGCAAGG TGTTAAATTGATCACGTTT TAGACCATTT malk 64 5.40e-05 TAAGGAATTT CGTGATGTTGCTTGCAAAA ATCGTGGCGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGANNKAGNTCACAHWW MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- lac 2.8e-07 11_[+1]_75 ompa 4.1e-07 50_[+1]_36 male 4.1e-07 16_[+1]_70 tdc 5.7e-07 80_[+1]_6 pbr322 9.8e-07 55_[+1]_31 tnaa 1.6e-06 73_[+1]_13 deop2 2e-06 9_[+1]_77 ara 2e-06 57_[+1]_29 ce1cg 2.7e-06 63_[+1]_23 crp 4.2e-06 65_[+1]_21 bglr1 4.6e-06 78_[+1]_8 gale 1.2e-05 26_[+1]_60 uxu1 1.9e-05 19_[+1]_67 ilv 1.9e-05 41_[+1]_45 malt 2e-05 43_[+1]_43 cya 2.9e-05 52_[+1]_34 malk 5.4e-05 63_[+1]_23 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGANNKAGNTCACAHWW MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGTGANNKAGNTCACAHWW width=19 seqs=17 lac ( 12) TGTGAGTTAGCTCACTCAT 1 ompa ( 51) CCTGACGGAGTTCACACTT 1 male ( 17) TGTAACAGAGATCACACAA 1 tdc ( 81) TGTGAGTGGTCGCACATAT 1 pbr322 ( 56) TGTGAAATACCGCACAGAT 1 tnaa ( 74) TGTGATTCGATTCACATTT 1 deop2 ( 10) TTTGAACCAGATCGCATTA 1 ara ( 58) TTTGCACGGCGTCACACTT 1 ce1cg ( 64) TTTGATCGTTTTCACAAAA 1 crp ( 66) TGCAAAGGACGTCACATTA 1 bglr1 ( 79) TGTGAGCATGGTCATATTT 1 gale ( 27) TGTAAACGATTCCACTAAT 1 uxu1 ( 20) TGTGATGTGGTTAACCCAA 1 ilv ( 42) CGTGATCAACCCCTCAATT 1 malt ( 44) TGTGACACAGTGCAAATTC 1 cya ( 53) TGTTAAATTGATCACGTTT 1 malk ( 64) CGTGATGTTGCTTGCAAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGANNKAGNTCACAHWW MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 12 w= 19 n= 1566 bayes= 7.31103 E= 3.6e+002 -1073 -4 -1073 144 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -163 188 -79 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -163 -1073 163 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -77 -1073 188 -237 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 164 -163 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 23 -4 -24 -5 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -36 96 18 -79 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -136 -4 98 -5 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 81 -1073 18 -37 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -235 37 135 -79 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -77 69 -24 21 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -63 -24 121 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -235 228 -1073 -237 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 145 -1073 -82 -237 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -235 228 -1073 -237 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 134 -163 -182 -137 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -36 69 -182 44 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 64 -1073 -1073 80 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 23 -163 -1073 95 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -1073 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGANNKAGNTCACAHWW MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 12 w= 19 nsites= 17 E= 3.6e+002 0.000000 0.176471 0.000000 0.823529 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.058824 0.764706 0.176471 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.058824 0.000000 0.941176 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.176471 0.000000 0.764706 0.058824 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.941176 0.058824 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.352941 0.176471 0.176471 0.294118 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.235294 0.352941 0.235294 0.176471 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.117647 0.176471 0.411765 0.294118 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.529412 0.000000 0.235294 0.235294 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.058824 0.235294 0.529412 0.176471 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.176471 0.294118 0.176471 0.352941 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.117647 0.176471 0.705882 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.058824 0.882353 0.000000 0.058824 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.823529 0.000000 0.117647 0.058824 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.058824 0.882353 0.000000 0.058824 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.764706 0.058824 0.058824 0.117647 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.235294 0.294118 0.058824 0.411765 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.470588 0.000000 0.000000 0.529412 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.352941 0.058824 0.000000 0.588235 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGANNKAGNTCACAHWW MEME-1 regular expression -------------------------------------------------------------------------------- TGTGA[AT][CAG][GT][AGT][GC][TC]TCACA[TCA][TA][TA] -------------------------------------------------------------------------------- Time 0.73 secs. ******************************************************************************** ******************************************************************************** MOTIF GCATCRGGCG MEME-2 width = 10 sites = 2 llr = 29 E-value = 1.9e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCATCRGGCG MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::a::5:::: pos.-specific C :a::a:::a: probability G a::::5aa:a matrix T :::a:::::: c :::::::::: f :::::::::: h :::::::::: m :::::::::: 1 :::::::::: 2 :::::::::: 3 :::::::::: 4 :::::::::: bits 10.9 9.8 8.7 7.6 Relative 6.5 Entropy 5.4 (20.9 bits) 4.4 3.3 2.2 ***** **** 1.1 ********** 0.0 ---------- Multilevel GCATCAGGCG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCATCRGGCG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- ce1cg 24 2.15e-07 GGTTTTTGTG GCATCGGGCG AGAATAGCGC pbr322 93 5.26e-07 AGAAAATACC GCATCAGGCG CTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCATCRGGCG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ce1cg 2.1e-07 23_[+2]_72 pbr322 5.3e-07 92_[+2]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCATCRGGCG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCATCRGGCG width=10 seqs=2 ce1cg ( 24) GCATCGGGCG 1 pbr322 ( 93) GCATCAGGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCATCRGGCG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 12 w= 10 n= 1728 bayes= 9.75322 E= 1.9e+003 -765 -765 226 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 173 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 171 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 73 -765 126 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 226 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 226 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 226 -765 -765 -765 -765 -765 -765 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCATCRGGCG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 12 w= 10 nsites= 2 E= 1.9e+003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCATCRGGCG MEME-2 regular expression -------------------------------------------------------------------------------- GCATC[AG]GGCG -------------------------------------------------------------------------------- Time 1.16 secs. ******************************************************************************** ******************************************************************************** MOTIF GCWCCCCR MEME-3 width = 8 sites = 2 llr = 23 E-value = 2.9e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCWCCCCR MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::5::::5 pos.-specific C :a:aaaa: probability G a::::::5 matrix T ::5::::: c :::::::: f :::::::: h :::::::: m :::::::: 1 :::::::: 2 :::::::: 3 :::::::: 4 :::::::: bits 10.9 9.8 8.7 7.6 Relative 6.5 Entropy 5.4 (16.3 bits) 4.4 3.3 2.2 ** **** 1.1 ******** 0.0 -------- Multilevel GCACCCCA consensus T G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWCCCCR MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- tnaa 60 5.23e-06 ATTTAATATT GCTCCCCG AACGATTGTG lac 34 1.28e-05 CACTCATTAG GCACCCCA GGCTTTACAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWCCCCR MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- tnaa 5.2e-06 59_[+3]_38 lac 1.3e-05 33_[+3]_64 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWCCCCR MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCWCCCCR width=8 seqs=2 tnaa ( 60) GCTCCCCG 1 lac ( 34) GCACCCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWCCCCR MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 12 w= 8 n= 1764 bayes= 9.783 E= 2.9e+003 -765 -765 226 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 73 -765 -765 71 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 245 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 73 -765 126 -765 -765 -765 -765 -765 -765 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWCCCCR MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 12 w= 8 nsites= 2 E= 2.9e+003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWCCCCR MEME-3 regular expression -------------------------------------------------------------------------------- GC[AT]CCCC[AG] -------------------------------------------------------------------------------- Time 1.60 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ce1cg 8.48e-07 23_[+2(2.15e-07)]_30_[+1(2.67e-06)]_\ 23 ara 1.44e-03 57_[+1(2.01e-06)]_29 bglr1 1.48e-02 78_[+1(4.63e-06)]_8 crp 1.95e-03 65_[+1(4.24e-06)]_21 cya 1.90e-02 52_[+1(2.91e-05)]_34 deop2 7.27e-03 9_[+1(2.01e-06)]_77 gale 2.85e-02 26_[+1(1.17e-05)]_60 ilv 1.96e-03 41_[+1(1.87e-05)]_45 lac 2.30e-07 11_[+1(2.85e-07)]_3_[+3(1.28e-05)]_\ 64 male 8.49e-04 16_[+1(4.06e-07)]_70 malk 2.40e-02 63_[+1(5.40e-05)]_23 malt 3.11e-02 43_[+1(2.01e-05)]_43 ompa 2.04e-03 50_[+1(4.06e-07)]_36 tnaa 1.02e-05 59_[+3(5.23e-06)]_6_[+1(1.65e-06)]_\ 13 uxu1 1.99e-02 19_[+1(1.87e-05)]_67 pbr322 3.56e-07 55_[+1(9.85e-07)]_18_[+2(5.26e-07)]_\ 3 trn9cat 7.52e-01 105 tdc 2.95e-03 80_[+1(5.72e-07)]_6 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (3) found. ******************************************************************************** CPU: sh-ln04.stanford.edu ********************************************************************************