AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00030_bbur_reg_300.orf -o00030_bbur_300.ace -a/home/amcguire/genomes/ORF_borburg.txt -z/home/amcguire/genomes/borburg.fna -g0.28 -x5 -e Parameter values: expect = 5 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.28 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 BB0004 246 phosphoglucomutase (femD) #2 BB0224 68 B. burgdorferi predicted coding region BB0224 #3 BB0437 172 chromosomal replication initiator protein (dnaA) #4 BB0438 240 DNA polymerase III, subunit beta (dnaN) #5 BB0439 90 conserved hypothetical protein #6 BB0440 91 ribosomal protein L34 (rpmH) #7 BB0444 45 nucleotide sugar epimerase #8 BB0445 166 fructose-bisphosphate aldolase (fba) #9 BB0541 283 B. burgdorferi predicted coding region BB0541 #10 BB0542 214 B. burgdorferi predicted coding region BB0542 #11 BB0543 114 B. burgdorferi predicted coding region BB0543 #12 BB0544 202 phosphoribosyl pyrophosphate synthetase (prs) #13 BB0636 129 glucose-6-phosphate 1-dehydrogenase (zwf) #14 BB0657 133 ribose 5-phosphate isomerase (rpi) #15 BB0732 263 penicillin-binding protein (pbp-3) Motif number 1 ATTCATAAGTTAAAACCAAAACCCTTAAAGA 1 106 1 TAAAACAAAA 0.92562 -141 ATATAAGCAAAAAAACAAATTTTTAAGTATA 1 148 1 AAAAAAAATT 0.918559 -99 CTATAATTTTAATAATCAATAGTATAGCCAC 1 188 0 AATAACAATA 0.881264 -59 ATTCCTCCTAAAAAAGAATAAATAATTGTTA 2 42 0 AAAAAAATAA 0.740758 -27 TTCTACATTAAAAAAAAAATAATATCTATTA 3 37 1 AAAAAAAATA 0.942829 -136 TTCAATTGTTTAAAATAATTTTTGATTCTTC 4 19 0 TAAAAAATTT 0.775926 -222 CATATAGTATTAAATACAATTAAACAATCAA 4 115 1 TAAATCAATT 0.793271 -126 TATATCTATAAAAAATAAAAATACAAAATCC 4 172 1 AAAAAAAAAA 0.9109 -69 AGCTTATTTTAATATTCAAAATAGCATTAAT 5 19 0 AATATCAAAA 0.562551 -72 ACCACAATGCAAAAAACAATATTGAATAAAC 5 57 0 AAAAACAATA 0.948119 -34 TGCATTGTGGTATAAAAAATTGAT 5 77 1 TATAAAAATT 0.834213 -14 GTATAGCATATAAATGCAATTGTCAATAATA 6 12 0 TAAATCAATT 0.793271 -80 GCTCCTCCATTAAAAACAATTTTATGCTGCC 6 68 0 TAAAACAATT 0.932108 -24 ATTCCTCTTTAAAATTCAATACAAAGCAAGC 7 19 0 AAAATCAATA 0.836273 -27 TTTTATGCAAAATAATAAATTTTTAATAAAT 8 21 1 AATAAAAATT 0.820813 -146 ATTTAAATCAAAAAATAAATAATTATTAAAT 8 68 0 AAAAAAAATA 0.942829 -99 TTTTTTGATTTAAATTCAATTCAACTTCTTA 8 84 1 TAAATCAATT 0.793271 -83 ATCAAATGCCTATAATAAATTATACACCTAA 8 112 0 TATAAAAATT 0.834213 -55 AGGCATTTGATAAAAGAAAAAATAAAATGGA 8 132 1 TAAAAAAAAA 0.918235 -35 ATAGATTTTTAAAAAAAAATTTTGTAAAATT 9 62 0 AAAAAAAATT 0.918559 -222 TAAACTATTTTATATGAAATTTGACAGTTTG 9 129 1 TATATAAATT 0.58438 -155 TTTTAATCAATAAAATCAAAATCTACTAAAT 9 208 0 TAAAACAAAA 0.92562 -76 ATCTTAGGAGTATAATAATAAAGTAAGAGTT 9 257 0 TATAAAATAA 0.560395 -27 ATACTATCTAAAAAACAAATTAAAGCTTTTC 10 24 0 AAAAAAAATT 0.918559 -191 CCTCCTGCTTTAAAAGCAAAAGGGCTTTTAA 10 54 0 TAAAACAAAA 0.92562 -161 TTGATGATTATAAAACAAAATTTATTACTCT 10 112 0 TAAAAAAAAT 0.884799 -103 GTTGAATTTTAAAATTAAATAAACCATCTTG 10 140 0 AAAATAAATA 0.821708 -75 TAAATCTAATAATAATCAAAATACAAAACTT 10 178 0 AATAACAAAA 0.821463 -37 CACCTTATTATATAATAATTACCATAAAGAT 11 47 0 TATAAAATTA 0.672811 -68 ACATAATCCTAAAAATAAAATTAAATAAA 12 9 0 AAAAAAAAAT 0.874874 -194 TATTAATAGCAAAAACAAATACTATAACATA 12 35 0 AAAAAAAATA 0.942829 -168 CTTTAATAATAAAAATAAAAATCTAAAAATT 12 67 0 AAAAAAAAAA 0.9109 -136 ATCATTTTTTTATAAACAAAACTAGTATATA 13 20 0 TATAACAAAA 0.834824 -110 TATATATCACAAAAAACATATTCATAAAGAT 13 81 0 AAAAACATAT 0.684098 -49 TTTTGTGATATATAATAAATTGACCAGATTG 13 98 1 TATAAAAATT 0.834213 -32 TTAGTATTGGTAAATAAAATAAT 14 3 0 TAAATAAATA 0.835045 -131 GATATACTTTAAAATACATTAAGCTTTAAGT 14 90 1 AAAATCATTA 0.588068 -44 TAAAACTGTTTAAAACAATTTGAAGCT 15 7 0 TAAAAAATTT 0.775926 -257 TAAAAAAGTTTAAAACAATTAAGCTATAAAC 15 44 1 TAAAAAATTA 0.83507 -220 ACGCTTAGCCAAAAATCAATAAATCTACCCT 15 75 1 AAAAACAATA 0.948119 -189 AATCTACCCTTAAAATCAAAAACATACCATC 15 96 1 TAAAACAAAA 0.92562 -168 AGTGTAAAATTATAACAATAATTTTACACTA 15 182 1 TATAAAATAA 0.560395 -82 ***** ***** Masking position 4 Map Score: 53.2212 Number of sites scoring better than the average of aligned sites = 3654 Number in coding regions = 2393 Number in noncoding regions = 1261 Number of orfs with sites within 600 bp upstream = 188 Fraction of orfs with sites within 600 bp upstream = 0.030196 Motif number 2 ATTTAATGGATTCAAAAGTATTAGGACAAATC 1 18 1 TTCAAATATT 0.426738 -229 ATGTTAAAGTTGATAAAATTTTTTCTGAAATG 1 76 0 TGAAAATTTT 0.915893 -171 TTGCTTATATTAATAAGCTTTTCTTTAAGGGT 1 126 0 TAAAAGTTTT 0.688472 -121 AATTTATCTGTGTCTAGATTTTAATTAA 3 7 0 TGTTAGTTTT 0.893727 -166 TTGTGAATTTTTAAAAGTTTTTGGTATTTCCT 3 71 0 TTAAAGTTTT 0.924386 -102 GTTGTATTTTTGATAAATTATTTGGTTCAATT 4 43 0 TGAAAATATT 0.766055 -198 ACCTACAATTTAACAAGATATTTACTTGCATC 4 84 1 TAAAAGTATT 0.399234 -157 GGATTTTGTATTTTTATTTTTTATAGATATAT 4 171 0 TTTTATTTTT 0.648369 -70 CATTTTATCTTAATAAGATTTTGTGGATTTTG 4 195 0 TAAAAGTTTT 0.688472 -46 TTTTAAACTTTTTTATGCAAAA 8 1 1 TTTAAATTTT 0.895054 -166 TAATAAATTTTTAATAAATTTTATGTTTGGTT 8 33 1 TTATAATTTT 0.927411 -134 TGGTTTTGATTTAATAATTATTTATTTTTTGA 8 60 1 TTATAATATT 0.793464 -107 CTTAGTAATTTTACAAAATTTTTTTTTAAAAA 9 56 1 TTAAAATTTT 0.923034 -228 TCGTTTTATATTATTAAATATTTGGAAGTTTA 9 99 1 TTATAATATT 0.793464 -185 AATATATCATTTAGTAGATTTTGATTTTATTG 9 200 1 TTATAGTTTT 0.928691 -84 ATTTTATTGATTAAAACTTTTTATTTAGTGAA 9 223 1 TTAAACTTTT 0.724317 -61 TTTATGTTTATGACTAGCTTTTAGAGTAATAA 10 90 1 TGATAGTTTT 0.922031 -125 TTTTTAAGTTTTTTTGTTTACT 11 1 1 TTTTAATTTT 0.90085 -114 TAAGTTTTTTTGTTTACTTTTTGCTTGTGGTA 11 15 1 TGTTACTTTT 0.643798 -100 TGTTTTATTTTTCATAAATTTTTGTAGGAGAG 11 92 1 TTCTAATTTT 0.725069 -23 ATTAATAGAATTTTTAGATTTTTATTTTTATT 12 59 1 TTTTAGTTTT 0.90255 -144 AGCAAGGTCATTAAAATATTTTAGCTTTAATA 12 90 0 TTAAATTTTT 0.708782 -113 TGACCTTGCTTTAAAAAATTTTAGTCATATTT 12 112 1 TTAAAATTTT 0.923034 -91 CATATTTGTGTGTATAAGTTTTATTAATTAGT 12 137 1 TGTTAATTTT 0.891892 -66 AAATTAAGATTGTTAAGATTTTCTAAAAAAGA 12 169 1 TGTAAGTTTT 0.887566 -34 CTAATCTTTATGAATATGTTTTTTGTGATATA 13 78 1 TGATATTTTT 0.701878 -52 TTTATGCTAATTTATAATTATTAGTATTGGTA 14 22 0 TTTTAATATT 0.732053 -112 GTTTAAATCTTGACTAGATTTTATGCTAATTT 14 41 0 TGATAGTTTT 0.922031 -93 AGCTTAATTGTTTTAAACTTTTTTATTTGTGT 15 37 0 TTTAAATTTT 0.895054 -227 TAAACAGCATTTTGTAAGTTTTGTTAATTGAA 15 147 0 TTTTAATTTT 0.90085 -117 ATTGTTATAGTGTAAAATTATTGTTATAATTT 15 188 0 TGTAAATATT 0.69958 -76 *** *** **** Masking position 6 Map Score: 36.8032 Number of sites scoring better than the average of aligned sites = 1835 Number in coding regions = 1185 Number in noncoding regions = 650 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 3 TTCTGAAATGATACTTGAAAAACTTAATTCT 1 55 0 ATACTTAAAA 0.719446 -192 AAAATTTTATCAACTTTAACATTCATAAGTT 1 86 1 CAACTTAACA 0.843568 -161 TTATGTTATTATACTTAAAAATTTGTTTTTT 1 157 0 ATACTTAAAA 0.719446 -90 AGATAGAATCCTAATTTAACATTATACTATA 3 110 1 CTAATTAACA 0.754188 -63 TAATTTATCAAAAATACAACAAAAAAACAAC 4 55 1 AAAATAAACA 0.927956 -186 AAAACAACCTACAATTTAACAAGATATTTAC 4 78 1 ACAATTAACA 0.864292 -163 AGTATTAAATACAATTAAACAATCAAACAGT 4 120 1 ACAATTAACA 0.864292 -121 ATAAAAAATAAAAATACAAAATCCACAAAAT 4 179 1 AAAATAAAAA 0.869739 -62 TGCCAAGCTACAAATTAAACACTAACATGGT 6 41 0 CAAATTAACA 0.893806 -51 ATTCCTCTTTAAAATTCAATACAAAGCAAGC 7 19 0 AAAATTAATA 0.821111 -27 CAAATATTTAATAATATAAAACGATATAAGA 9 92 0 ATAATAAAAA 0.708788 -192 GTTGAATTTTAAAATTAAATAAACCATCTTG 10 140 0 AAAATTAATA 0.821111 -75 ATTTAATTTTAAAATTCAACAGCATTGAAGT 10 151 1 AAAATTAACA 0.954917 -64 AATAATAATCAAAATACAAAACTTCAATGCT 10 171 0 AAAATAAAAA 0.869739 -44 GTAAACAAAAAAACTTAAAAA 11 1 0 AAACTTAAAA 0.875541 -114 ACCACAAGCAAAAAGTAAACAAAAAAACTTA 11 15 0 AAAAGTAACA 0.619027 -100 AAATTTATGAAAAATAAAACAGGGTTTATAT 11 82 0 AAAATAAACA 0.927956 -33 TCCTAAAAATAAAATTAAATAAA 12 3 0 AAAATTAATA 0.821111 -200 GCAAAAACAAATACTATAACATAATCCTAAA 12 27 0 ATACTAAACA 0.750512 -176 AATAAAAATAAAAATCTAAAAATTCTATTAA 12 60 0 AAAATCAAAA 0.719304 -143 AAATTAAGCTCAAATTAAATATCATTTTTTT 13 40 0 CAAATTAATA 0.645885 -90 AAATAATGATATACTTTAAAATACATTAAGC 14 83 1 ATACTTAAAA 0.719446 -51 CAGTTTTACACAAATAAAAAAGTTTAAAACA 15 30 1 CAAATAAAAA 0.726266 -234 ATCTACCCTTAAAATCAAAAACATACCATCA 15 97 1 AAAATCAAAA 0.719304 -167 ACATAGTGTAAAATTATAACAATAATTTTAC 15 178 1 AAATTAAACA 0.479582 -86 CAATAATTTTACACTATAACAATCAACCCAT 15 197 1 ACACTAAACA 0.71275 -67 ****** **** Masking position 8 Map Score: 28.2118 Number of sites scoring better than the average of aligned sites = 1377 Number in coding regions = 904 Number in noncoding regions = 473 Number of orfs with sites within 600 bp upstream = 111 Fraction of orfs with sites within 600 bp upstream = 0.0178285 Motif number 4 ATATAATATGTTAGAATAAACGAGCTGATT 2 12 1 TTAGAATAAA 0.67349 -57 TCCTCCTAAAAAAGAATAAATAATTGTTAA 2 41 0 AAAGAATAAA 0.484714 -28 ATTTGGTTCAATTGTTTAAAATAATTTTTG 4 26 0 ATTGTTTAAA 0.716529 -215 CTTGCATCATATAGTATTAAATACAATTAA 4 108 1 ATAGTATTAA 0.748407 -133 AATATTCAAAATAGCATTAATAACTCACT 5 10 0 ATAGCATTAA 0.844666 -81 AAAAAACAATATTGAATAAACCTAGAAAAG 5 48 0 ATTGAATAAA 0.698742 -43 TTTGCATAAAAAAGTTTAAAA 8 2 0 AAAGTTTAAA 0.506209 -165 AATTTATTATTTTGCATAAAAAAGTTTAAA 8 12 0 TTTGCATAAA 0.715725 -155 TATGTTTGGTTTTGATTTAATAATTATTTA 8 54 1 TTTGATTTAA 0.771435 -113 TTATTTATTTTTTGATTTAAATTCAATTCA 8 77 1 TTTGATTTAA 0.771435 -90 TTCATATAAAATAGTTTAAACTTCCAAATA 9 117 0 ATAGTTTAAA 0.748407 -167 TGACAGTTTGCTTGATTAAATTTGCATTAA 9 150 1 CTTGATTAAA 0.576474 -134 CTTGATTAAATTTGCATTAATGTATATCCT 9 160 1 TTTGCATTAA 0.777506 -124 TTTTGATTTTATTGATTAAAACTTTTTATT 9 218 1 ATTGATTAAA 0.762992 -66 ATGACCAAGAAAAGCTTTAATTTGTTTTTT 10 16 1 AAAGCTTTAA 0.7223 -199 TGTTTTTTAGATAGTATTAAAAGCCCTTTT 10 38 1 ATAGTATTAA 0.748407 -177 TTAAAATATTTTAGCTTTAATAATAAAAAT 12 82 0 TTAGCTTTAA 0.850919 -121 TTTTAATGACCTTGCTTTAAAAAATTTTAG 12 106 1 CTTGCTTTAA 0.730574 -97 TAATTATAAATTAGCATAAAATCTAGTCAA 14 34 1 TTAGCATAAA 0.747661 -100 AAAATCTAGTCAAGATTTAAACCTTAGTAA 14 51 1 CAAGATTTAA 0.433811 -83 TAAAATACATTAAGCTTTAAGTTTATCAAG 14 99 1 TAAGCTTTAA 0.662974 -35 AGCTTCAAATTGTTTTAAACAGTTTTAC 15 9 1 ATTGTTTTAA 0.77819 -255 TTATAGCTTAATTGTTTTAAACTTTTTTAT 15 43 0 ATTGTTTTAA 0.77819 -221 TATAAGTGCATAAGAATTAATAATGTTATG 15 225 0 TAAGAATTAA 0.496838 -39 ********** Masking position 7 Map Score: 17.3819 Number of sites scoring better than the average of aligned sites = 1246 Number in coding regions = 818 Number in noncoding regions = 428 Number of orfs with sites within 600 bp upstream = 99 Fraction of orfs with sites within 600 bp upstream = 0.0159011 Motif number 5 TCATTTCAGAAAAAATTTTATCAACTTTAA 1 75 1 AAAAATTTTA 0.749732 -172 AAGAATCAAAAATTATTTTAAACAATTGAA 4 20 1 AATTATTTTA 0.887469 -221 CTCCATTAAAAACAATTTTATGCTGCCAAG 6 65 0 AACAATTTTA 0.923915 -27 TTTTAAACTTTTTTATGCAAAATAA 8 6 1 AACTTTTTTA 0.802117 -161 GTAGAAGATTAACTATCTTAGTAATTTTAC 9 40 1 AACTATCTTA 0.916816 -244 TTTTTTAAAAATCTATCTTATATCGTTTTA 9 77 1 ATCTATCTTA 0.485349 -207 TGGAAGTTTAAACTATTTTATATGAAATTT 9 121 1 AACTATTTTA 0.952029 -163 ATAATTATCTTAGGAGTATAAT 9 272 0 AATTATCTTA 0.814117 -12 ATTAAAGCTAAAATATTTTAATGACCTTGC 12 91 1 AAATATTTTA 0.830946 -112 CCTTGCTTTAAAAAATTTTAGTCATATTTG 12 115 1 AAAAATTTTA 0.749732 -88 AGAAAATCTTAACAATCTTAATTTACTAAT 12 163 0 AACAATCTTA 0.870892 -40 AGCTTCAAATTGTTTTAAACAGTTTTA 15 8 1 AATTGTTTTA 0.783983 -256 AATTGTTTTAAACAGTTTTACACAAATAAA 15 18 1 AACAGTTTTA 0.848247 -246 AATTGTTTTAAACTTTTTTATTTGTGTAAA 15 34 0 AACTTTTTTA 0.802117 -230 TTTATAGCTTAATTGTTTTAAACTTTTTTA 15 44 0 AATTGTTTTA 0.783983 -220 AAATTATAACAATAATTTTACACTATAACA 15 188 1 AATAATTTTA 0.82836 -76 ********** Masking position 6 Map Score: 19.6754 Number of sites scoring better than the average of aligned sites = 443 Number in coding regions = 273 Number in noncoding regions = 170 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 6 TTCATAAGTTAAAACCAAAACCCTTAAAGAA 1 107 1 AAACCAAAAC 0.617716 -140 GCTTATTAATATAAGCAAAAAAACAAATTTT 1 140 1 AAAGCAAAAA 0.941124 -107 TTACATAGGAAATACCAAAAACTTTTAAAAA 3 65 1 ATACCAAAAA 0.852258 -108 GTATAGTGCTAAAACCAACAAGGACAAAAAA 3 152 1 AAACCAACAA 0.856248 -21 ACTTAATTGAAGAATCAAAAATTATTTTAAA 4 11 1 AAATCAAAAA 0.95118 -230 AACCAAATAATTTATCAAAAATACAACAAAA 4 48 1 TTATCAAAAA 0.365154 -193 TATCAAAAATACAACAAAAAAACAACCTACA 4 60 1 AAACAAAAAA 0.520777 -181 CAACAAAAAAACAACCTACAATTTAACAAGA 4 71 1 AAACCTACAA 0.469135 -170 ATACAATTAAACAATCAAACAGTAGCTTACT 4 128 1 AAATCAAACA 0.741184 -113 ATAAAAATACAAAATCCACAAAATCTTATTA 4 186 1 AAATCCACAA 0.352312 -55 TTATTAAATCAAAACCAAACATAAAATTTAT 8 46 0 AAACCAAACA 0.731836 -121 GAATTGAATTTAAATCAAAAAATAAATAATT 8 75 0 TAATCAAAAA 0.649292 -92 GGCATTTGATAAAAGAAAAAATAAAATGGAA 8 133 1 AAAGAAAAAA 0.483356 -34 TTTAATCAATAAAATCAAAATCTACTAAATG 9 207 0 AAATCAAAAT 0.668583 -77 GGCTTTTAATACTATCTAAAAAACAAATTAA 10 32 0 ATATCTAAAA 0.473152 -183 CTCCTGCTTTAAAAGCAAAAGGGCTTTTAAT 10 53 0 AAAGCAAAAG 0.581785 -162 AAAGCTAGTCATAAACATAAATAAGCCCTCC 10 80 0 AAAACATAAA 0.285995 -135 ATTTTGTTTTATAATCATCAAGATGGTTTAT 10 122 1 AAATCATCAA 0.546997 -93 AAATCTAATAATAATCAAAATACAAAACTTC 10 177 0 AAATCAAAAT 0.668582 -38 AAAGATTACCACAAGCAAAAAGTAAACAAAA 11 22 0 AAAGCAAAAA 0.941124 -93 TTATATAATAATTACCATAAAGATTACCACA 11 40 0 ATACCATAAA 0.527053 -75 AAATTCTATTAATAGCAAAAACAAATACTAT 12 41 0 ATAGCAAAAA 0.83239 -162 AATAAAAATAAAAATCTAAAAATTCTATTAA 12 60 0 AAATCTAAAA 0.742974 -143 ATAATTATAAATTAGCATAAAATCTAGTCAA 14 33 1 ATAGCATAAA 0.489639 -101 CGCTTAGCCAAAAATCAATAAATCTACCCTT 15 76 1 AAATCAATAA 0.544983 -188 ATCTACCCTTAAAATCAAAAACATACCATCA 15 97 1 AAATCAAAAA 0.95118 -167 * ********* Masking position 4 Map Score: 21.1076 Number of sites scoring better than the average of aligned sites = 1774 Number in coding regions = 1208 Number in noncoding regions = 566 Number of orfs with sites within 600 bp upstream = 104 Fraction of orfs with sites within 600 bp upstream = 0.0167041 Motif number 7 TAATGGATTCAAAAGTATTAGGACAAATCTT 1 21 1 AAAGTATTAG 0.411089 -226 TTAAAATTATAGCAATAATATGACTAGAATA 1 207 1 AGAATAATAT 0.907813 -40 ACATTAAAAAAAAAATAATATCTATTACATA 3 41 1 AAAATAATAT 0.930608 -132 ATAGATATATAGTAGTAATAGTAGTAAGCTA 4 150 0 AGAGTAATAG 0.715069 -91 CCACAATGCAAAAAACAATATTGAATAAACC 5 56 0 AAAACAATAT 0.678994 -35 AATTTTAAAGAGGAATAATAGT 7 34 1 AGAATAATAG 0.832532 -12 TGATAAAAGAAAAAATAAAATGGAAAGGAGT 8 139 1 AAAATAAAAT 0.732555 -28 TAAAATGGAAAGGAGTGATATAA 8 154 1 AGAGTGATAT 0.784965 -13 ACATAATCCTAAAAATAAAATTAAATAAA 12 9 0 AAAATAAAAT 0.732555 -194 TTGTTTATAAAAAAATGATATTTAATTTGAG 13 32 1 AAAATGATAT 0.907813 -98 TTAGTAATTAAATAATGATATACTTTAAAAT 14 74 1 AAAATGATAT 0.907813 -60 GTAAAATTATAACAATAATTTTACACTATAA 15 185 1 AAAATAATTT 0.587994 -79 CATAAGAATTAATAATGTTATGGGTTGATTG 15 216 0 AAAATGTTAT 0.667918 -48 ** ******** Masking position 4 Map Score: 3.64449 Number of sites scoring better than the average of aligned sites = 392 Number in coding regions = 257 Number in noncoding regions = 135 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 8 TTATAGCAATAATATGACTAGAATATCAAT 1 213 1 AATATGACTA 0.928345 -34 GTAGCTTACTACTATTACTACTATATATCT 4 149 1 ACTATTACTA 0.715366 -92 AAAATTTTGTAAAATTACTAAGATAGTTAA 9 48 0 AAAATTACTA 0.862503 -236 CAAATATGACCAAGAAAAGCTT 10 3 1 AATATGACCA 0.953596 -212 AATTACCATAAAGATTACCACAAGCAAAAA 11 32 0 AAGATTACCA 0.853722 -83 TTATTATATAATAATTACCATAAAGATTAC 11 44 0 ATAATTACCA 0.673803 -71 TATACACACAAATATGACTAAAATTTTTTA 12 123 0 AATATGACTA 0.928345 -80 GATATATAATAAATTGACCAGATTGGACTA 13 104 1 AAATTGACCA 0.738781 -26 ********** Masking position 7 Map Score: 0.455591 Number of sites scoring better than the average of aligned sites = 99 Number in coding regions = 64 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 9 AGTATAGCCACTTATGTTATTATACTTAAA 1 169 0 CTTATGTTAT 0.923483 -78 TTTATTCTAACATATTATATA 2 2 0 CATATTATAT 0.704592 -67 CCTAGAAAAGCTTATTTTAATATTCAAAAT 5 28 0 CTTATTTTAA 0.704592 -63 TTTGTCCCTCCTGATGATATGTGGGTAGAA 9 16 1 CTGATGATAT 0.715666 -268 TGAATTAACTCTTACTTTATTATTATACTC 9 251 1 CTTACTTTAT 0.779495 -33 TATTGCACACCTTATTATATAATAATTACC 11 55 0 CTTATTATAT 0.944293 -60 TATTTTTAGGATTATGTTATAGTATTTGTT 12 23 1 ATTATGTTAT 0.703821 -180 TCTCCTTATTATATACTAGTTTTG 13 5 1 CTTATTATAT 0.944293 -125 ATCTGGTCAATTTATTATATATCACAAAAA 13 97 0 TTTATTATAT 0.654327 -33 ATTATTTTATTTACCAATAC 14 1 1 ATTATTTTAT 0.769469 -133 ********** Masking position 4 Map Score: 2.72436 Number of sites scoring better than the average of aligned sites = 90 Number in coding regions = 57 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 10 ********** No masking Map Score: 4.10937e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 11 ********** No masking Map Score: 4.10937e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 12 ********** No masking Map Score: 4.10937e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0