AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00500_bbur_reg_300.orf -o00500_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 BB0115 139 ribosomal protein S6 (rpsF) #3 BB0116 173 PTS system, maltose and glucose-specific IIABC component (malX) #4 BB0166 139 4-alpha-glucanotransferase (malQ) #5 BB0207 52 UTP--glucose-1-phosphate uridylyltransferase (gtaB) #6 BB0346 183 B. burgdorferi predicted coding region BB0346 #7 BB0554 261 B. burgdorferi predicted coding region BB0554 #8 BB0557 138 phosphocarrier protein HPr (ptsH-2) #9 BB0577 115 B. burgdorferi predicted coding region BB0577 #10 BB0578 252 methyl-accepting chemotaxis protein (mcp-1) #11 BB0579 88 DNA polymerase III, subunit alpha (dnaE) #12 BB0605 70 serine-type D-Ala-D-Ala carboxypeptidase (dacA) #13 BB0620 226 beta-glucosidase, putative #14 BB0644 154 conserved hypothetical protein #15 BB0645 45 PTS system, glucose-specific IIBC component (ptsG) #16 BB0732 263 penicillin-binding protein (pbp-3) #17 BBB04_BBB05 276 BBB04: PTS system, cellobiose-specific IIC component (celB), BBB05: PTS system, cellobiose-specific IIA component (celC) #18 BBB29 300 PTS system, maltose and glucose-specific IIABC component (malX) Motif number 1 ATATAAGCAAAAAAACAAATTTTTAAGTAT 1 148 1 AAAAACAAAT 0.773917 -99 TATAATTTTAATAATCAATAGTATAGCCAC 1 188 0 ATAATCAATA 0.802473 -59 AATTTTTATAATATACAAAATGTAACTGAA 2 26 0 ATATACAAAA 0.41907 -114 TTTTTTCAACAATAAAAATTTTTATAATAT 2 42 0 AATAAAAATT 0.842849 -98 TCACTTATTTATAAAAAATATATAATACCT 3 29 1 ATAAAAAATA 0.833917 -145 AAAAAGCTTTATAATAAAATAGTGT 3 159 1 ATAATAAAAT 0.807718 -15 AAAAAATTAGAAATTAAATACTTTTATGAT 4 22 0 AAATTAAATA 0.817406 -118 TAGCAATTTTAAAAAAAATTAGAAATTAAA 4 34 0 AAAAAAAATT 0.911745 -106 TCAGAACAACATATTAAATAGCAATTTTAA 4 52 0 ATATTAAATA 0.734183 -88 GTTATAAATTATAATAAATATCAGATCAGA 4 77 0 ATAATAAATA 0.864341 -63 ATTAATTAATAATTTAAATAAATTCCCACT 4 109 0 AATTTAAATA 0.687306 -31 TGAATATATAAAATTAAATTTTTGCTATAA 5 11 1 AAATTAAATT 0.835502 -42 TAATACATAAAATAAAAATTTAAAGCTTAG 6 38 0 AATAAAAATT 0.842849 -146 AGCTTAAGCTATTAACAAAACTACATTTAA 6 144 0 ATTAACAAAA 0.463688 -40 TTATGCTAACATTATAAATTATAGATGTTT 7 33 0 ATTATAAATT 0.800265 -229 ACTATTTGTCAATAAAAATAGCCCCCGGCT 7 92 0 AATAAAAATA 0.808824 -170 AAATAAATTAATAAAAAATTCACTTAAAAC 7 137 0 ATAAAAAATT 0.864341 -125 CAACAATCTTAAAATAAATTAATAAAAAAT 7 148 0 AAAATAAATT 0.929021 -114 AATAAAAAGGATTAAAAAATAAAACCTCAA 7 204 0 ATTAAAAAAT 0.632405 -58 ACAAAAAAATTAAATTAGTAAAAACC 7 246 0 AAATTAAATT 0.835502 -16 ATAATACATAAAAATAAATTATATATTCCC 8 64 0 AAAATAAATT 0.929021 -75 GTTAATCAAAAAAAACAATATTCATAATGA 8 104 1 AAAAACAATA 0.838479 -35 TAATTAGTATATAATAAAATATTTTGATTT 9 22 1 ATAATAAAAT 0.807718 -94 TTATATAAATATAATAAAATACAAATTTTA 9 58 0 ATAATAAAAT 0.807718 -58 TTTAAAACTAATTTTAAATTAAAT 10 5 0 ATTTTAAATT 0.443879 -248 AATTAGTTTTAAATTAAATTAAATTAAATT 10 22 1 AAATTAAATT 0.835502 -231 AAATTAAATTAAATTAAATTAAATGAGGAG 10 32 1 AAATTAAATT 0.835502 -221 AAATACATCAATAAACAAAAAATATTTTTA 10 147 0 ATAAACAAAA 0.624588 -106 TTCAACTTTTAATATCAAATCAAATACATC 10 168 0 AATATCAAAT 0.692912 -85 TTAAATCTCTAATTTAAATTATTGCAACAA 11 26 0 AATTTAAATT 0.468015 -63 TAAATTAGAGATTTAAAAATTATTATGACT 11 40 1 ATTTAAAAAT 0.423913 -49 TAATCAAATAAATAAAAATTAAAAAAGTCA 11 65 0 AATAAAAATT 0.842849 -24 ATTGATTGTTAATTACAATACAATTAAAAA 12 23 0 AATTACAATA 0.5391 -48 GTTGTAATATTAAAATTATATATTAT 12 55 0 ATATTAAAAT 0.641894 -16 TTAAGTGTATAAATTCAATAATGCTTTGTC 13 109 1 AAATTCAATA 0.740673 -118 CTTGCTAATAAATATAAATTACTAAATTAG 13 185 1 AATATAAATT 0.856725 -42 AACTAAAAACAAAAACAATTTATCATTCAA 14 35 0 AAAAACAATT 0.8682 -120 TTATTTAAAAAAAAACAATTCTTTTAAAGA 14 76 0 AAAAACAATT 0.8682 -79 TTTTTTTTAAATAAAAAATATAATCTGTAT 14 92 1 ATAAAAAATA 0.833917 -63 TTTCTTAAAAAATATAAAAACTTAAATACA 14 117 0 AATATAAAAA 0.736088 -38 ATTTTTTAAGAAAATAAATTTTACAGGAGG 14 134 1 AAAATAAATT 0.929021 -21 CCTAAAATAAAAAATAAATTAACCCTTAAG 15 18 0 AAAATAAATT 0.929021 -28 AGTTTTACACAAATAAAAAAGTTTAAAACA 16 31 1 AAATAAAAAA 0.647194 -233 CGCTTAGCCAAAAATCAATAAATCTACCCT 16 76 1 AAAATCAATA 0.8682 -188 ATCTACCCTTAAAATCAAAAACATACCATC 16 97 1 AAAATCAAAA 0.773917 -167 GCATCTTTCAATTAACAAAACTTACAAAAT 16 141 1 ATTAACAAAA 0.463688 -123 CGATATTAACAATAAAAATATCGAAATTTT 17 17 0 AATAAAAATA 0.808824 -260 TTAGAAAGAAAAAATAAAAACCAATCTTAT 17 88 0 AAAATAAAAA 0.84298 -189 TTAGAATATTATAATAAAATAATAAAATTA 17 115 0 ATAATAAAAT 0.807718 -162 ACAGCAAATTAAAAAAAATAGCCAAAATGA 17 203 0 AAAAAAAATA 0.890608 -74 ********** Masking position 7 Map Score: 50.8167 Number of sites scoring better than the average of aligned sites = 4181 Number in coding regions = 2713 Number in noncoding regions = 1468 Number of orfs with sites within 600 bp upstream = 233 Fraction of orfs with sites within 600 bp upstream = 0.0374237 Motif number 2 TTTAATGGATTCAAAAGTATTAGGACAAATCTTGCCAG 1 19 1 TAAATATAAA 0.928182 -228 ATTAAGTTTTTCAAGTATCATTTCAGAAAAAATTTTAT 1 58 1 TAAGTCTAAA 0.76566 -189 ACCCTTAAAGAAAAGCTTATTAATATAAGCAAAAAAAC 1 126 1 AAAGTATAAA 0.891568 -121 AAACAAATTTTTAAGTATAATAACATAAGTGGCTATAC 1 160 1 TAAGTATAAA 0.891568 -87 CTATTGATTATTAAAATTATAGCAATAATATGACTAGA 1 197 1 TAAATAAAAA 0.893687 -50 AAAATGTAACTGAAAAATAATCTTAAACC 2 2 0 TAAATATAAC 0.865351 -138 CTCTCTTAAAATAAGATTATAGCAAAAATTTAATTTTA 5 19 0 AAAGTAAAAA 0.842506 -34 AATAAAAATTTAAAGCTTAGATATAAACACCTTGAAAG 6 20 0 TAAGTAAAAC 0.726783 -164 TTATTGTCAATAAACTTTATTTCCATAATACTACATAT 6 101 0 TAACTATAAA 0.928445 -83 TAAGCTATTAACAAAACTACATTTAAACTATTTATTGT 6 132 0 AAAATAAAAC 0.806994 -52 AAAAATTCACTTAAAACTAATTTGAAAACAGCACTATT 7 116 0 TAAATATAAA 0.928182 -146 AAGATAGTAATTAAACTTATTCTAACAA 8 1 0 TAAATATAAA 0.928182 -138 CCTTTACATAAGAAATATAGCATAATAAAGATAGTAAT 8 28 0 AAAATACAAA 0.824582 -111 ATTATAATGTAAAAAGTTAATCAAAAAAAACAATATTC 8 89 1 AAAATATAAA 0.928182 -50 AAGCTATTATATAAATATAATAAAATACAAATTTTATT 9 56 0 AAAATATAAC 0.865351 -60 CTTAAACCATAAAACCATCTAAAGATACAAATCATTCT 10 60 0 AAACTCAAAC 0.625192 -193 TGTATTGTAATTAACAATCAATAAATAATATATAATTT 12 31 1 TAACTCAAAA 0.770348 -40 ATGTTATTATTCAAAAGTATTATTATAAAGTATAATAC 13 140 1 TAAATATAAA 0.928182 -87 AAAACCCTCCTAAAATAAAAAATAAATT 15 28 0 AAACTCTAAA 0.837555 -18 CCAAAAATCAATAAATCTACCCTTAAAATCAAAAACAT 16 83 1 AAAATACAAA 0.824582 -181 GTGTAAAATTATAACAATAATTTTACACTATAACAATC 16 183 1 AAACTATAAC 0.86581 -81 ATTTTACACTATAACAATCAACCCATAACATTATTAAT 16 202 1 AAACTCAAAA 0.770348 -62 TAATAAAATAATAAAATTAGAAAGAAAAAATAAAAACC 17 96 0 AAAATAAAAA 0.893711 -181 TAAAATTTTTACAAAGCTAATAAGAGAAATAACTATTG 18 80 0 AAAATATAAA 0.928182 -221 CAGTAAATGGTCAACAATAAAGAGAAAAAAAGGTGCTC 18 134 0 TAACTAAAAA 0.894086 -167 TTAATTGTATTAAACATTAACATAAGAACCGTAACAGG 18 250 1 TAACTACAAA 0.825152 -51 * *** ** * * ** Masking position 8 Map Score: 26.8615 Number of sites scoring better than the average of aligned sites = 1089 Number in coding regions = 695 Number in noncoding regions = 394 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 3 CAATAAAAATTTTTATAATATACAAAATGT 2 33 0 TTTTATAATA 0.47409 -107 TTTATCACTTATTTATAAAAAATATATAAT 3 25 1 ATTTATAAAA 0.816375 -149 TTTATAAAAAATATATAATACCTTACTTTA 3 36 1 ATATATAATA 0.782021 -138 GCAAAAAAAGCTTTATAATAAAATAGTGT 3 155 1 CTTTATAATA 0.69436 -19 CTGTGTTATAAATTATAATAAATATCAGAT 4 81 0 AATTATAATA 0.71879 -59 TGAATATATAAAATTAAATTTTT 5 4 1 ATATATAAAA 0.814543 -49 GTTTAATACATAAAATAAAAATTTAAAGCT 6 41 0 TAAAATAAAA 0.727756 -143 AACTAGTACTATTAATAATAGTTTATTTCC 6 68 1 ATTAATAATA 0.876717 -116 ATAGCTTAAGCTTAATAATAAGAGTTCATA 6 162 1 CTTAATAATA 0.797413 -22 CTTAAAATAAATTAATAAAAAATTCACTTA 7 141 0 ATTAATAAAA 0.8969 -121 AAAAGGATTAAAAAATAAAACCTCAAAAAC 7 200 0 AAAAATAAAA 0.814839 -62 CTAACATTGCATAAATAAAAAGGATTAAAA 7 217 0 ATAAATAAAA 0.876913 -45 TAACTTTTTACATTATAATACATAAAAATA 8 78 0 CATTATAATA 0.590528 -61 ATAATTAGTATATAATAAAATATTTTGATT 9 21 1 TATAATAAAA 0.745955 -95 TTTTGATTTCTTTAATAAAATTTGTATTTT 9 43 1 TTTAATAAAA 0.814367 -73 ATTATATAAATATAATAAAATACAAATTTT 9 59 0 TATAATAAAA 0.745955 -57 TTTATTATATTTATATAATAGCTTTAATTT 9 70 1 TTATATAATA 0.671958 -46 CCTTAATCAAATAAATAAAAATTAAAAAAG 11 68 0 ATAAATAAAA 0.876913 -21 TTAACAATCAATAAATAATATATAATTTTA 12 41 1 ATAAATAATA 0.853243 -30 AATTTATACACTTAATAAAAGTTTAAGCTG 13 94 0 CTTAATAAAA 0.828132 -133 TTGTATTATACTTTATAATAATACTTTTGA 13 150 0 CTTTATAATA 0.69436 -77 TTAACCATATAAATAATAAATGCTAATT 13 209 0 ATAAATAATA 0.853243 -18 TTGTTTTTTTTTAAATAAAAAATATAATCT 14 88 1 TTAAATAAAA 0.81217 -67 TTTTCTTAAAAAATATAAAAACTTAAATAC 14 118 0 AAATATAAAA 0.730845 -37 AAAACCCTCCTAAAATAAAAAATAAATTAA 15 26 0 TAAAATAAAA 0.727756 -20 ATTAGAAAGAAAAAATAAAAACCAATCTTA 17 89 0 AAAAATAAAA 0.814839 -188 ATTATAATAAAATAATAAAATTAGAAAGAA 17 108 0 AATAATAAAA 0.843319 -169 TTTATTATTTTATTATAATATTCTAAATTG 17 119 1 TATTATAATA 0.428963 -158 AGCTCATTTGATTAATAATAGGATGTTTGA 18 220 0 ATTAATAATA 0.876717 -81 ********** Masking position 5 Map Score: 33.9383 Number of sites scoring better than the average of aligned sites = 2138 Number in coding regions = 1271 Number in noncoding regions = 867 Number of orfs with sites within 600 bp upstream = 178 Fraction of orfs with sites within 600 bp upstream = 0.0285898 Motif number 4 TGATTATTAAAATTATAGCAATAATATGAC 1 201 1 AATTATAGCA 0.648234 -46 ACCTTACTTTAATTGTAGCTTTTTCTCAAG 3 55 1 AATTGTAGCT 0.912795 -119 CTCAAGATCAAATTAAATCTTGCTTGATTT 3 79 1 AATTAAATCT 0.843303 -95 CTTTCAAGGTGTTTATATCTAAGCTTTAAA 6 20 1 GTTTATATCT 0.609708 -164 TAAAATAAAAATTTAAAGCTTAGATATAAA 6 31 0 ATTTAAAGCT 0.949294 -153 GCCCCCGGCTATTTTTATCTCTTTTGATAA 7 72 0 ATTTTTATCT 0.57179 -190 AATTGCCAAAAATTAAAGCTATTATATAAA 9 79 0 AATTAAAGCT 0.949294 -37 ATTTAATTTAATTTAAAACTAATTTTAAAT 10 16 0 ATTTAAAACT 0.620467 -237 GAGGAGAATGATTTGTATCTTTAGATGGTT 10 56 1 ATTTGTATCT 0.750546 -197 CTTTGAAATAAATTTAAGCTTTCATCTTAA 10 93 0 AATTTAAGCT 0.822868 -160 GCCTAAATTATAGCTTAATGTGTAT 14 6 1 AATTATAGCT 0.94928 -149 GTTTAAAACAATTTGAAGCT 16 1 0 ATTTGAAGCT 0.912795 -263 GGCTAAGCGTGTTTATAGCTTAATTGTTTT 16 55 0 GTTTATAGCT 0.844593 -209 TGTTTAATACAATTAAAGCTCATTTGATTA 18 236 0 AATTAAAGCT 0.949294 -65 ********** Masking position 7 Map Score: 10.1399 Number of sites scoring better than the average of aligned sites = 341 Number in coding regions = 229 Number in noncoding regions = 112 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 5 TGCCAGAATTAAGTTTTTCAAGTATCATTTC 1 51 1 AAGTTTTCAA 0.635112 -196 TTTCAGAAAAAATTTTATCAACTTTAACATT 1 78 1 AATTTATCAA 0.899638 -169 TTATTGCTATAATTTTAATAATCAATAGTAT 1 194 0 AATTTAATAA 0.713548 -53 CAACAATAAAAATTTTTATAATATACAAAAT 2 35 0 AATTTTATAA 0.847512 -105 AAAGAGACTAATTTTTTTCAACAATAAAAAT 2 53 0 ATTTTTTCAA 0.879382 -87 GGTATTATATATTTTTTATAAATAAGTGATA 3 27 0 ATTTTTATAA 0.669531 -147 TTAATTTCTAATTTTTTTTAAAATTGCTATT 4 35 1 ATTTTTTTAA 0.830959 -105 CTGTGTTATAAATTATAATAAATATCAGATC 4 80 0 AATTTAATAA 0.713548 -60 ATCCTAATTCTTTCAAGGTGTTTATA 6 6 1 AATTTTTCAA 0.952381 -178 TTTTTTATTAATTTATTTTAAGATTGTTGCA 7 149 1 ATTTTTTTAA 0.830959 -113 ATAAAATACAAATTTTATTAAAGAAATCAAA 9 44 0 AATTTATTAA 0.858033 -72 GAAAGCTTAAATTTATTTCAAAGTAATTAAT 10 100 1 ATTTTTTCAA 0.879382 -153 TAATTTGACACATTATTTCAACTTTTAATAT 10 183 0 CATTTTTCAA 0.635112 -70 TATTGCAACAAATCTTATCAAAATAA 11 6 0 AATCTATCAA 0.438236 -83 CTCTAATTTAAATTATTGCAACAAATCTTAT 11 19 0 AATTTTGCAA 0.717225 -70 AAAAAAAAACAATTCTTTTAAAGAAAACTAA 14 69 0 AATTTTTTAA 0.930964 -86 AGCTTCAAATTGTTTTAAACAGTTTTAC 16 8 1 AATTTTTTAA 0.930964 -256 TTTATAGCTTAATTGTTTTAAACTTTTTTAT 16 43 0 AATTTTTTAA 0.930964 -221 CATAGTGTAAAATTATAACAATAATTTTACA 16 179 1 AATTTAACAA 0.786983 -85 CATTTTGGCTATTTTTTTTAATTTGCTGTAT 17 204 1 ATTTTTTTAA 0.830959 -73 AGCGTAATAAAATTTTTACAAAGCTAATAAG 18 94 0 AATTTTACAA 0.891811 -207 CACCTCCAACAATTTTTCCAACCGATTTAAA 18 186 1 AATTTTCCAA 0.717225 -115 AATGAGCTTTAATTGTATTAAACATTAACAT 18 242 1 AATTTATTAA 0.858033 -59 **** ****** Masking position 6 Map Score: 30.1472 Number of sites scoring better than the average of aligned sites = 571 Number in coding regions = 410 Number in noncoding regions = 161 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 6 TAAAAATTTGTTTTTTTGCTTATATTAATA 1 143 0 TTTTTTTGCT 0.898647 -104 CAAGCAAGATTTAATTTGATCTTGAGAAAA 3 75 0 TTAATTTGAT 0.629657 -99 ATTATAAAGCTTTTTTTGCAAAAAAAAACT 3 144 0 TTTTTTTGCA 0.79273 -30 AAATTGCTATTTAATATGTTGTTCTGATCT 4 55 1 TTAATATGTT 0.565418 -85 ATTACTATCTTTATTATGCTATATTTCTTA 8 28 1 TTATTATGCT 0.863897 -111 TATGCTATATTTCTTATGTAAAGGGAATAT 8 42 1 TTCTTATGTA 0.564095 -97 ATATAATTTATTTTTATGTATTATAATGTA 8 70 1 TTTTTATGTA 0.611537 -69 TGAATATTGTTTTTTTTGATTAACTTTTTA 8 98 0 TTTTTTTGAT 0.826665 -41 CATAAAAACTTTTTTTTGAATAGGGTCACC 10 220 0 TTTTTTTGAA 0.672903 -33 CAAAAAAAAGTTTTTATGATAGAATCCCTT 10 232 1 TTTTTATGAT 0.842345 -21 TTATTTTGATAAGATTTGTT 11 1 1 TTATTTTGAT 0.752931 -88 TTAATTTTTATTTATTTGATTAAGGT 11 73 1 TTTATTTGAT 0.726832 -16 ACATTATTAATTCTTATGCACTTATAGTAT 16 229 1 TTCTTATGCA 0.778741 -35 TAATATCGTTTTCATATGCTATTTCATGTA 17 39 1 TTCATATGCT 0.81984 -238 GTATTAATGATTTATATGCTTCATAAGATT 17 66 1 TTTATATGCT 0.847139 -211 GCTATTTTTTTTAATTTGCTGTATTATTTC 17 211 1 TTAATTTGCT 0.759668 -66 CCTGTTACGGTTCTTATGTTAATGTTTAAT 18 258 0 TTCTTATGTT 0.750143 -43 ********** Masking position 5 Map Score: 10.9094 Number of sites scoring better than the average of aligned sites = 964 Number in coding regions = 656 Number in noncoding regions = 308 Number of orfs with sites within 600 bp upstream = 69 Fraction of orfs with sites within 600 bp upstream = 0.0110826 Motif number 7 AGGACAAATCTTGCCAGAATTAAGTTTTTC 1 40 1 TTGCCAGAAT 0.670598 -207 TTATTAATATAAGCAAAAAAACAAATTTTT 1 142 1 AAGCAAAAAA 0.500989 -105 ATTAAAATTATAGCAATAATATGACTAGAA 1 206 1 TAGCAATAAT 0.5416 -41 ATTTTTATTGTTGAAAAAAATTAGTCTCTT 2 53 1 TTGAAAAAAA 0.562029 -87 GTCTATCGCATTGCAAAATATGCAACAAAG 2 103 0 TTGCAAAATA 0.637714 -37 AAGTTTTTTTTTGCAAAAAAAGCTTTATAA 3 143 1 TTGCAAAAAA 0.947047 -31 AATAAGATTATAGCAAAAATTTAATTTTAT 5 18 0 TAGCAAAAAT 0.910719 -35 AAACCTAACATTGCATAAATAAAAAGGATT 7 221 0 TTGCATAAAT 0.637713 -41 CTGATAAAAATTGCCAAAAATTAAAGCTAT 9 87 0 TTGCCAAAAA 0.922233 -29 ATTTAAATTATTGCAACAAATCTTATCAAA 11 15 0 TTGCAACAAA 0.754314 -74 TAAACACGCTTAGCCAAAAATCAATAAATC 16 70 1 TAGCCAAAAA 0.871197 -194 TTAAAAAAAATAGCCAAAATGAAAAGCTAA 17 195 0 TAGCCAAAAT 0.871197 -82 CTTATTAGCTTTGTAAAAATTTTATTACGC 18 94 1 TTGTAAAAAT 0.562029 -207 TTTAAATCGGTTGGAAAAATTGTTGGAGGT 18 187 0 TTGGAAAAAT 0.655403 -114 ********** Masking position 8 Map Score: 4.60896 Number of sites scoring better than the average of aligned sites = 677 Number in coding regions = 488 Number in noncoding regions = 189 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 8 AATTTTATCAACTTTAACATTCATAAGTTAA 1 88 1 ATTTAACATT 0.668097 -159 TTTTGATTAACTTTTTACATTATAATACATA 8 84 0 CTTTTACATT 0.731343 -55 ATTTAAAACTAATTTTAAATTAAAT 10 5 0 ATTTTAAATT 0.567787 -248 ATTTAAAATTAGTTTTAAATTAAATTAAATT 10 16 1 ATTTTAAATT 0.535061 -237 AACAAAAAATATTTTTACATTTAAATGGTAA 10 133 0 ATTTTACATT 0.933341 -120 ACCAGTACTTAATTTGACACATTATTTCAAC 10 192 0 ATTTGACACA 0.656958 -61 GCATTATTGAATTTATACACTTAATAAAAGT 13 102 0 ATTATACACT 0.745495 -125 TGTTTTAAACAGTTTTACACAAATAAAAAAG 16 21 1 ATTTTACACA 0.901442 -243 TTATTGTTATAATTTTACACTATGTAAACAG 16 172 0 ATTTTACACT 0.950343 -92 TTATAACAATAATTTTACACTATAACAATCA 16 191 1 ATTTTACACT 0.950343 -73 GCGTAATAAAATTTTTACAAAGCTAATAAGA 18 93 0 ATTTTACAAA 0.58689 -208 * ********* Masking position 7 Map Score: 4.19111 Number of sites scoring better than the average of aligned sites = 142 Number in coding regions = 84 Number in noncoding regions = 58 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 9 TTTCTGAAATGATACTTGAAAAACTTAATTCTG 1 54 0 GATACTGAAA 0.731513 -193 TTAGAAATTAAATACTTTTATGATAAAATCTAT 4 13 0 AATACTTATA 0.682238 -127 ATAAAACCTCTATTAATTAATAATT 4 125 0 AAAACTCATA 0.921129 -15 GTACTAGTTTAATACATAAAATAAAAATTTAAA 6 44 0 AATACTAAAA 0.865251 -140 TTTTATTCAGAAAACATCTATAATTTATAATGT 7 22 1 AAAACTCATA 0.921129 -240 GACCCTACCCAATACATGCAACAATCTTAAAAT 7 163 0 AATACTGAAA 0.93535 -99 ATTAAAAAATAAAACCTCAAAAACATCCGACCC 7 191 0 AAAACTCAAA 0.951942 -71 TATCAAATCAAATACATCAATAAACAAAAAATA 10 153 0 AATACTCATA 0.932788 -100 TTCAATTAACAAAACTTACAAAATGCTGTTTAC 16 147 1 AAAACTAAAA 0.843837 -117 ATAAATCATTAATACATGAAATAGCATATGAAA 17 48 0 AATACTGAAA 0.93535 -229 CAACCGATTTAAAACGTCAAACATCCTATTATT 18 204 1 AAAACTCAAA 0.951942 -97 ***** ** ** * Masking position 4 Map Score: 6.80826 Number of sites scoring better than the average of aligned sites = 128 Number in coding regions = 93 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 10 CTTAATTCTGGCAAGATTTGTCCTAATACTTT 1 32 0 GCAATTTGTC 0.977289 -215 ATTAAATCTTGCTTGATTTATCTAACCTTATT 3 90 1 GCTATTTATC 0.964707 -84 TATAATGTTAGCATAATTTGTCCATTTATCAA 7 47 1 GCAATTTGTC 0.977289 -215 ATAGCCCCCGGCTATTTTTATCTCTTTTGATA 7 73 0 GCTTTTTATC 0.954545 -189 ATAGCCGGGGGCTATTTTTATTGACAAATAGT 7 90 1 GCTTTTTATT 0.731698 -172 TTTGAAAACAGCACTATTTGTCAATAAAAATA 7 102 0 GCAATTTGTC 0.977297 -160 TTAATTTTTGGCAATTTTTATCAGGAGGATTG 9 93 1 GCATTTTATC 0.964756 -23 *** ******* Masking position 7 Map Score: 3.47551 Number of sites scoring better than the average of aligned sites = 42 Number in coding regions = 28 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 11 ********** No masking Map Score: 1.89248e-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: 1.89248e-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 13 ********** No masking Map Score: 1.89248e-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