AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00500_bbur_reg_100.orf -o00500_bbur_100.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 BB0557 138 phosphocarrier protein HPr (ptsH-2) #8 BB0578 252 methyl-accepting chemotaxis protein (mcp-1) #9 BB0579 88 DNA polymerase III, subunit alpha (dnaE) #10 BB0605 70 serine-type D-Ala-D-Ala carboxypeptidase (dacA) #11 BB0620 226 beta-glucosidase, putative #12 BB0644 154 conserved hypothetical protein #13 BB0645 45 PTS system, glucose-specific IIBC component (ptsG) #14 BB0732 263 penicillin-binding protein (pbp-3) #15 BBB04_BBB05 276 BBB04: PTS system, cellobiose-specific IIC component (celB), BBB05: PTS system, cellobiose-specific IIA component (celC) #16 BBB29 300 PTS system, maltose and glucose-specific IIABC component (malX) Motif number 1 ATCTTGCCAGAATTAAGTTTTTCAAGTATC 1 47 1 AATTAAGTTT 0.720668 -200 TATAAGCAAAAAAACAAATTTTTAAGTATA 1 149 1 AAAACAAATT 0.648316 -98 ACTATTGATTATTAAAATTATAGCAATAAT 1 196 1 ATTAAAATTA 0.864803 -51 TTTGTATATTATAAAAATTTTTATTGTTGA 2 37 1 ATAAAAATTT 0.894416 -103 TTTATTGTTGAAAAAAATTAGTCTCTTTTA 2 56 1 AAAAAAATTA 0.952184 -84 TCACTTATTTATAAAAAATATATAATACCT 3 29 1 ATAAAAAATA 0.761752 -145 TTTTTTGCAAAAAAAAACTTTACTTACTAC 3 133 0 AAAAAAACTT 0.860914 -41 TTTTTTTGCAAAAAAAGCTTTATAATAAAA 3 148 1 AAAAAAGCTT 0.700818 -26 AGCAATTTTAAAAAAAATTAGAAATTAAAT 4 33 0 AAAAAAATTA 0.952184 -107 GTGGGAATTTATTTAAATTATTAATTAATA 4 110 1 ATTTAAATTA 0.792538 -30 GAATATATAAAATTAAATTTTTGCTATAAT 5 12 1 AATTAAATTT 0.871901 -41 TTCTCTCTTAAAATAAGATTATAGCAAAAA 5 29 0 AAATAAGATT 0.563237 -24 AATACATAAAATAAAAATTTAAAGCTTAGA 6 37 0 ATAAAAATTT 0.894416 -147 CATATCATGGAAATAAACTATTATTAATAG 6 76 0 AAATAAACTA 0.809258 -108 GTATTATGGAAATAAAGTTTATTGACAATA 6 108 1 AATAAAGTTT 0.812031 -76 ACAAAACTACATTTAAACTATTTATTGTCA 6 130 0 ATTTAAACTA 0.576778 -54 TAAAGATAGTAATTAAACTTATTCTAACAA 7 11 0 AATTAAACTT 0.708633 -128 AATATAGCATAATAAAGATAGTAATTAAAC 7 23 0 AATAAAGATA 0.619849 -116 TAATACATAAAAATAAATTATATATTCCCT 7 63 0 AAATAAATTA 0.922433 -76 ATTTAATTTAAAATTAGTTTTAAAT 8 6 1 ATTTAAAATT 0.522584 -247 TTTTAAATTAAATTAAATTAAATTAAATGA 8 28 1 AATTAAATTA 0.886678 -225 AATTACTTTGAAATAAATTTAAGCTTTCAT 8 98 0 AAATAAATTT 0.911412 -155 TTTTAATATCAAATCAAATACATCAATAAA 8 162 0 AAATCAAATA 0.55822 -91 CCCTATTCAAAAAAAAGTTTTTATGATAGA 8 225 1 AAAAAAGTTT 0.867833 -28 TAAATCTCTAATTTAAATTATTGCAACAAA 9 25 0 ATTTAAATTA 0.792538 -64 AATCAAATAAATAAAAATTAAAAAAGTCAT 9 64 0 ATAAAAATTA 0.906737 -25 TGTTAATTACAATACAATTAAAAAGGAGCC 10 17 0 AATACAATTA 0.808901 -54 GTTGTAATATTAAAATTATATATTATTT 10 53 0 ATTAAAATTA 0.864803 -18 TATACACTTAATAAAAGTTTAAGCTGATGT 11 90 0 ATAAAAGTTT 0.762233 -137 TTGCTAATAAATATAAATTACTAAATTAGC 11 186 1 ATATAAATTA 0.853079 -41 ACTAAAAACAAAAACAATTTATCATTCAAT 12 34 0 AAAACAATTT 0.84861 -121 TTTTTTTTAAATAAAAAATATAATCTGTAT 12 92 1 ATAAAAAATA 0.761752 -63 CTTAAAAAATATAAAAACTTAAATACAGAT 12 114 0 ATAAAAACTT 0.75137 -41 TTTTTTAAGAAAATAAATTTTACAGGAGGT 12 135 1 AAATAAATTT 0.911412 -20 CTAAAATAAAAAATAAATTAACCCTTAAGT 13 17 0 AAATAAATTA 0.922433 -29 AAAACTGTTTAAAACAATTTGAAGCT 14 7 0 AAAACAATTT 0.84861 -257 TTACACAAATAAAAAAGTTTAAAACAATTA 14 35 1 AAAAAAGTTT 0.867833 -229 AAAAAAGTTTAAAACAATTAAGCTATAAAC 14 45 1 AAAACAATTA 0.865477 -219 CGATATTAACAATAAAAATATCGAAATTTT 15 17 0 AATAAAAATA 0.811626 -260 ATAATAAAATAATAAAATTAGAAAGAAAAA 15 105 0 AATAAAATTA 0.929086 -172 ACAGCAAATTAAAAAAAATAGCCAAAATGA 15 203 0 AAAAAAAATA 0.867528 -74 TGCAAAGCGTAATAAAATTTTTACAAAGCT 16 100 0 AATAAAATTT 0.919454 -201 GTTAATGTTTAATACAATTAAAGCTCATTT 16 241 0 AATACAATTA 0.808901 -60 ********** Masking position 6 Map Score: 47.7576 Number of sites scoring better than the average of aligned sites = 3413 Number in coding regions = 2264 Number in noncoding regions = 1149 Number of orfs with sites within 600 bp upstream = 205 Fraction of orfs with sites within 600 bp upstream = 0.0329264 Motif number 2 ATACTTTTGAATCCATTAAATATTTTCC 1 7 0 ACATTAAATA 0.533765 -240 AAGTATCATTTCAGAAAAAATTTTATCAACTT 1 70 1 TAAAAAAATT 0.844688 -177 GCTATAATTTTAATAATCAATAGTATAGCCAC 1 188 0 TAAATCAATA 0.910013 -59 AGAATATCAATGAGAAGAAATTTAC 1 232 1 TAAAGAAATT 0.680177 -15 TATCACTTATTTATAAAAAATATATAATACCT 3 27 1 TAAAAAAATA 0.927661 -147 AAAAAAAATTAGAAATTAAATACTTTTATGAT 4 22 0 AAATTAAATA 0.873209 -118 AATAGCAATTTTAAAAAAAATTAGAAATTAAA 4 34 0 TAAAAAAATT 0.844688 -106 GATCAGAACAACATATTAAATAGCAATTTTAA 4 52 0 AAATTAAATA 0.873209 -88 GTGTTATAAATTATAATAAATATCAGATCAGA 4 77 0 TAAATAAATA 0.946355 -63 TGAATATATAAAATTAAATTTTTGCTATAA 5 9 1 TAATTAAATT 0.733481 -44 TACTAGTTTAATACATAAAATAAAAATTTAAA 6 44 0 AAATAAAATA 0.833509 -140 TAAAGTTTATTGACAATAAATAGTTTAAATGT 6 120 1 TAAATAAATA 0.946355 -64 TATTCCCTTTACATAAGAAATATAGCATAATA 7 39 0 AAAAGAAATA 0.841825 -100 TTATAATACATAAAAATAAATTATATATTCCC 7 64 0 TAAATAAATT 0.8821 -75 AAGTTAATCAAAAAAAACAATATTCATAATGA 7 102 1 AAAAACAATA 0.886391 -37 AAAATTAGTTTTAAATTAAATTAAATTAAATT 8 20 1 TAATTAAATT 0.733481 -233 ATTTAAATGGTAAAAATTAATTACTTTGAAAT 8 114 0 TAAATTAATT 0.515127 -139 ATACATCAATAAACAAAAAATATTTTTACATT 8 143 0 AAAAAAAATA 0.931554 -110 ACCTTAATCAAATAAATAAAAATTAAAA 9 71 0 ACAATAAATA 0.75683 -18 GTATTGTAATTAACAATCAATAAATAATATAT 10 32 1 TAAATCAATA 0.910015 -39 TATTAAGTGTATAAATTCAATAATGCTTTGTC 11 107 1 AAATTCAATA 0.797899 -120 CAAAATGGCTTGCTAATAAATATAAATTACTA 11 177 1 TCAATAAATA 0.745712 -50 TTAACCATATAAATAATAAATGCTAATT 11 209 0 AAAAATAATA 0.659008 -18 TAAACTAAAAACAAAAACAATTTATCATTCAA 12 35 0 AAAAACAATT 0.767923 -120 TTTTATTTAAAAAAAAACAATTCTTTTAAAGA 12 76 0 AAAAACAATT 0.767923 -79 GTTTTTTTTTAAATAAAAAATATAATCTGTAT 12 90 1 AAAAAAAATA 0.931554 -65 ATATTTTTTAAGAAAATAAATTTTACAGGAGG 12 132 1 AAAATAAATT 0.888149 -23 AACCCTCCTAAAATAAAAAATAAATTAACCCT 13 22 0 AAAAAAAATA 0.931554 -24 CACGCTTAGCCAAAAATCAATAAATCTACCCT 14 74 1 CAAATCAATA 0.546253 -190 TATAAGTGCATAAGAATTAATAATGTTATGGG 14 223 0 TAAATTAATA 0.714695 -41 TAAATCATTAATACATGAAATAGCATATGAAA 15 48 0 AAATGAAATA 0.661896 -229 ATAAAATTAGAAAGAAAAAATAAAAACCAATC 15 92 0 AAAAAAAATA 0.931554 -185 ATACAGCAAATTAAAAAAAATAGCCAAAATGA 15 203 0 TAAAAAAATA 0.927661 -74 TAGTCTCGGATTAGATTCAATATCCCCACCCC 16 36 1 TAATTCAATA 0.788133 -265 * * ******** Masking position 5 Map Score: 38.7571 Number of sites scoring better than the average of aligned sites = 1715 Number in coding regions = 1069 Number in noncoding regions = 646 Number of orfs with sites within 600 bp upstream = 148 Fraction of orfs with sites within 600 bp upstream = 0.0237713 Motif number 3 AAAAAACAAATTTTTAAGTATAATAACATAAGTGG 1 157 1 TTTAGATAAA 0.755633 -90 TCATATTATTGCTATAATTTTAATAATCAATAGTA 1 195 0 GTAATTTAAA 0.522921 -52 CAGTTACATTTTGTATATTATAAAAATTTTTATTG 2 28 1 TGTATATAAA 0.776775 -112 AGACTAATTTTTTTCAACAATAAAAATTTTTATAA 2 45 0 TTTACATAAA 0.934593 -95 ACACTATTTTATTATAAAGCTTTTTTTGC 3 155 0 TTTATATAAG 0.911306 -19 TAATAGATTTTATCATAAAAGTATTTAATT 4 6 1 GTTATATAAA 0.931134 -134 TCCCACTGTGTTATAAATTATAATAAATATCAGAT 4 81 0 TATATATAAA 0.707933 -59 ACATAAGAAATATAGCATAATAAAGATAGTAATTA 7 26 0 TTAATATAAG 0.719353 -113 TTGATTAACTTTTTACATTATAATACATAAAAATA 7 78 0 TTTATATAAA 0.959898 -61 TAAGCTTTCATCTTAAACCATAAAACCATCTAAAG 8 74 0 TTTACATAAA 0.917504 -179 TGATGTATTTGATTTGATATTAAAAGTTGAAATAA 8 167 1 GTTATTTAAA 0.814889 -86 AAAGGGATTCTATCATAAAAACTTTTTTTT 8 233 0 GTTATATAAA 0.931134 -20 CAATAAATAATATATAATTTTAATATTACAAC 10 49 1 TTAATTTAAA 0.735092 -22 ATAATAATACTTTTGAATAATAACATTGACAAAGC 11 131 0 TTTATATAAA 0.971577 -96 TTTTGTATTATACTTTATAATAATACTTTTGAATA 11 147 0 TCTATATAAA 0.784039 -80 GCTTAATGTGTATTGAATGATAAATTGTTTTTGTT 12 23 1 TTTATATAAT 0.721529 -132 TGATGGTATGTTTTTGATTTTAAGGGTAGATTTAT 14 93 0 TTTATTTAAG 0.770193 -171 GTTTACATAGTGTAAAATTATAACAATAATTTTAC 14 174 1 TTAATATAAA 0.89227 -90 ATAACAATAATTTTACACTATAACAATCAACCCAT 14 193 1 TTTACATAAA 0.872443 -71 CTAATTTTATTATTTTATTATAATATTCTAAATTG 15 114 1 TTTATATAAA 0.962597 -163 GCTTTAATTGTATTAAACATTAACATAAGAACCGT 16 247 1 TTTACTTAAA 0.808449 -54 * ** ** **** * Masking position 11 Map Score: 21.2799 Number of sites scoring better than the average of aligned sites = 479 Number in coding regions = 284 Number in noncoding regions = 195 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 4 TATGAATGTTAAAGTTGATAAAATTTTTTCTG 1 81 0 AAAGTTATAA 0.910128 -166 CCCTTAAAGAAAAGCTTATTAATATAAGCAAA 1 127 1 AAAGCTATAA 0.97504 -120 ATAAAAATTTAAAGCTTAGATATAAACACCTT 6 25 0 AAAGCTAGTA 0.74719 -159 TTATGGAAATAAAGTTTATTGACAATAAATAG 6 111 1 AAAGTTATGA 0.813238 -73 TATAATGTAAAAAGTTAATCAAAAAAAACAAT 7 91 1 AAAGTTATAA 0.910128 -48 TTATTGCAACAAATCTTATCAAAATAA 9 6 0 AAATCTATAA 0.819402 -83 TACAACCTCTAATGCTGATGGAGGGACTTGAA 11 12 1 AATGCTATGA 0.759153 -215 AATAAAAGTTTAAGCTGATGTAGCTCAGTTGG 11 79 0 TAAGCTATTA 0.666013 -148 ATAAATAATAAATGCTAATTTAGTAATTTATA 11 197 0 AATGCTATTA 0.791754 -30 CACTCTAAACAAATTTGATGAAGATAAATCCA 15 147 0 AAATTTATAA 0.540482 -130 GCCAAAATGAAAAGCTAATAAGCCATTTAATT 15 181 0 AAAGCTATAG 0.947305 -96 AAATTCCGCAAAAGCTAATGAAATAATACAGC 15 228 0 AAAGCTATAA 0.97504 -49 AAATTTTTACAAAGCTAATAAGAGAAATAACT 16 84 0 AAAGCTATAG 0.947305 -217 TAATACAATTAAAGCTCATTTGATTAATAATA 16 230 0 AAAGCTATTG 0.903137 -71 ****** ** ** Masking position 8 Map Score: 13.1489 Number of sites scoring better than the average of aligned sites = 213 Number in coding regions = 153 Number in noncoding regions = 60 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 5 TTTTGAATCCATTAAATATTTTCC 1 5 0 ATTAAATATT 0.577214 -242 TCAGTTACATTTTGTATATTATAAAAATTT 2 27 1 TTTGTATATT 0.657499 -113 ATTAGTCTCTTTTATATACTAACTAAGTAA 2 72 1 TTTATATACT 0.394642 -68 AAAGTAAGGTATTATATATTTTTTATAAAT 3 35 0 ATTATATATT 0.852086 -139 CCTTACTTTAATTGTAGCTTTTTCTCAAGA 3 56 1 ATTGTAGCTT 0.533562 -118 TCAAGATCAAATTAAATCTTGCTTGATTTA 3 80 1 ATTAAATCTT 0.546248 -94 AAAATTTAATTTTATATATTCA 5 3 0 TTTATATATT 0.882217 -50 AATATATAAAATTAAATTTTTGCTATAATC 5 13 1 ATTAAATTTT 0.253548 -40 AAAATAAAAATTTAAAGCTTAGATATAAAC 6 30 0 TTTAAAGCTT 0.575636 -154 AAATTTTTATTTTATGTATTAAACTAGTAC 6 47 1 TTTATGTATT 0.593805 -137 TGTAGTTTTGTTAATAGCTTAAGCTTAATA 6 149 1 TTAATAGCTT 0.252823 -35 ATAAAAATAAATTATATATTCCCTTTACAT 7 57 0 ATTATATATT 0.852086 -82 ATAATTTATTTTTATGTATTATAATGTAAA 7 72 1 TTTATGTATT 0.593805 -67 AGGAGAATGATTTGTATCTTTAGATGGTTT 8 57 1 TTTGTATCTT 0.628525 -196 AATAATTTAAATTAGAGATTTAAAAATTAT 9 33 1 ATTAGAGATT 0.3494 -56 TTTTTTAATTTTTATTTATTTGATTAAGGT 9 69 1 TTTATTTATT 0.575227 -20 TTATATATTATTTATTGATTGTTAATTACA 10 36 0 TTTATTGATT 0.541696 -35 TAATATTAAAATTATATATTATTTATTGAT 10 47 0 ATTATATATT 0.852086 -24 GCCTAAATTATAGCTTAATGTGTATT 12 7 1 ATTATAGCTT 0.816976 -148 TTAAATACAGATTATATTTTTTATTTAAAA 12 96 0 ATTATATTTT 0.590635 -59 TATTTAAGTTTTTATATTTTTTAAGAAAAT 12 119 1 TTTATATTTT 0.650706 -36 GCTAAGCGTGTTTATAGCTTAATTGTTTTA 14 54 0 TTTATAGCTT 0.852129 -210 TAAGGGTAGATTTATTGATTTTTGGCTAAG 14 78 0 TTTATTGATT 0.541696 -186 ********** Masking position 2 Map Score: 13.5434 Number of sites scoring better than the average of aligned sites = 652 Number in coding regions = 373 Number in noncoding regions = 279 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 6 GATTTGTCCTAATACTTTTGAATCCATTAAAT 1 18 0 AATATTTTAA 0.953582 -229 ATATTATTGCTATAATTTTAATAATCAATAGT 1 196 0 TATATTTTAT 0.700259 -51 GTAACTGAAAAATAATCTTAAACC 2 3 0 AATATCTTAA 0.6413 -137 AAAAGAGACTAATTTTTTTCAACAATAAAAAT 2 53 0 AATTTTTTAA 0.876233 -87 TAAGGTATTATATATTTTTTATAAATAAGTGA 3 29 0 TATATTTTAT 0.700261 -145 TTTAATTTCTAATTTTTTTTAAAATTGCTATT 4 34 1 AATTTTTTAA 0.876233 -106 TGATATTTATTATAATTTATAACACAGTGGGA 4 84 1 TATATTTAAA 0.520099 -56 TTAATTTAAAACTAATTTTAAATTAAAT 8 7 0 ACTATTTTAA 0.631153 -246 ATAAACAAAAAATATTTTTACATTTAAATGGT 8 135 0 AATATTTTCA 0.932987 -118 AAAAAGTCATAATAATTTTTAAATCTCTAATT 9 42 0 AATATTTTAA 0.953582 -47 ATAAATAATATATAATTTTAATATTACAAC 10 51 1 TATATTTTAT 0.700259 -20 ACTTTATAATAATACTTTTGAATAATAACATT 11 139 0 AATATTTTAA 0.953582 -88 TAAAAACAAAAACAATTTATCATTCAATACAC 12 30 0 AACATTTACA 0.269762 -125 AAAAAAAAACAATTCTTTTAAAGAAAACTAAC 12 68 0 AATTTTTTAA 0.876233 -87 AAATACAGATTATATTTTTTATTTAAAAAAAA 12 92 0 TATATTTTAT 0.700261 -63 TTTAAGTTTTTATATTTTTTAAGAAAATAAAT 12 121 1 TATATTTTAA 0.912793 -34 AATTGTTTTAAACAGTTTTACACAAATAAAAA 14 18 1 AACATTTTCA 0.781078 -246 TTTATAGCTTAATTGTTTTAAACTTTTTTATT 14 42 0 AATTTTTTAA 0.876233 -222 AAATTATTGTTATAATTTTACACTATGTAAAC 14 174 0 TATATTTTCA 0.876443 -90 AAATTATAACAATAATTTTACACTATAACAAT 14 188 1 AATATTTTCA 0.932986 -76 TCATTTTGGCTATTTTTTTTAATTTGCTGTAT 15 203 1 TATTTTTTAA 0.782946 -74 AAAGCGTAATAAAATTTTTACAAAGCTAATAA 16 95 0 AAAATTTTCA 0.47313 -206 TTACACCTCCAACAATTTTTCCAACCGATTTA 16 183 1 AACATTTTCC 0.264023 -118 AATGAGCTTTAATTGTATTAAACATTAACATA 16 242 1 AATTTATTAA 0.293639 -59 **** **** ** Masking position 6 Map Score: 22.0681 Number of sites scoring better than the average of aligned sites = 1186 Number in coding regions = 772 Number in noncoding regions = 414 Number of orfs with sites within 600 bp upstream = 87 Fraction of orfs with sites within 600 bp upstream = 0.0139737 Motif number 7 TTATCAACTTTAACATTCATAAGTTAAAACCA 1 92 1 TAATTCATAA 0.892452 -155 GTTTTTTTGCTTATATTAATAAGCTTTTCTTT 1 132 0 TTATTAATAA 0.701874 -115 CTTATGTTATTATACTTAAAAATTTGTTTTTT 1 157 0 TACTTAAAAA 0.692024 -90 ATTATTGCTATAATTTTAATAATCAATAGTAT 1 194 0 TATTTAATAA 0.709924 -53 AGGTATTATATATTTTTTATAAATAAGTGATA 3 27 0 TATTTTATAA 0.378363 -147 TTGATTTATCTAACCTTATTATTTGGCTTGTG 3 102 1 TACTTATTAT 0.166403 -72 TGATATTTATTATAATTTATAACACAGTGGGA 4 84 1 TAATTTATAA 0.764353 -56 GGGAATTTATTTAAATTATTAATTAATAGAGG 4 112 1 TTATTATTAA 0.369874 -28 ATTAAACTAGTACTATTAATAATAGTTTATTT 6 64 1 TAATTAATAA 0.928791 -120 GTTAATAGCTTAAGCTTAATAATAAGAGTTCA 6 158 1 TACTTAATAA 0.925539 -26 CTTTTTACATTATAATACATAAAAATAAATTA 7 73 0 TAATACATAA 0.348634 -66 TCAAAAAAAACAATATTCATAATGAGGGGTTT 7 109 1 CAATTCATAA 0.442363 -30 TTAATTACAATACAATTAAAAAGGAGCCATTT 10 13 0 TAATTAAAAA 0.702195 -58 ATTGAATTTATACACTTAATAAAAGTTTAAGC 11 96 0 TACTTAATAA 0.925539 -131 TTGTCAATGTTATTATTCAAAAGTATTATTAT 11 134 1 TAATTCAAAA 0.600017 -93 CATTTTGTATTATACTTTATAATAATACTTTT 11 152 0 TACTTTATAA 0.755567 -75 TTAACCATATAAATAATAAATGCTAATTT 11 208 0 TAAATAATAA 0.456901 -19 AATCAACCCATAACATTATTAATTCTTATGCA 14 217 1 TAATTATTAA 0.764574 -47 TAATGATTTATATGCTTCATAAGATTGGTTTT 15 70 1 TACTTCATAA 0.88774 -207 CCTTAGCCTTATTAACAGCTACCCT 16 4 1 TACTTATTAA 0.755793 -297 TTAAAGCTCATTTGATTAATAATAGGATGTTT 16 222 0 TTATTAATAA 0.702194 -79 ** ******** Masking position 11 Map Score: 13.3182 Number of sites scoring better than the average of aligned sites = 580 Number in coding regions = 346 Number in noncoding regions = 234 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 8 TTTTAAGTATAATAACATAAGTGGCTATAC 1 168 1 AATAACATAA 0.652694 -79 TTATTAAAATTATAGCAATAATATGACTAG 1 204 1 TATAGCAATA 0.637031 -43 AAAATAAGATTATAGCAAAAATTTAATTTT 5 20 0 TATAGCAAAA 0.924066 -33 TAGTTTTGTTAATAGCTTAAGCTTAATAAT 6 151 1 AATAGCTTAA 0.922581 -33 ACATAAGAAATATAGCATAATAAAGATAGT 7 31 0 TATAGCATAA 0.959336 -108 GCCTAAATTATAGCTTAATGTGTATTGA 12 9 1 TATAGCTTAA 0.935135 -146 TAAGCGTGTTTATAGCTTAATTGTTTTAAA 14 52 0 TATAGCTTAA 0.935135 -212 TAATACATGAAATAGCATATGAAAACGATA 15 42 0 AATAGCATAT 0.751361 -235 AATTAAAAAAAATAGCCAAAATGAAAAGCT 15 197 0 AATAGCCAAA 0.786014 -80 ********** Masking position 4 Map Score: 3.89601 Number of sites scoring better than the average of aligned sites = 143 Number in coding regions = 79 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 9 TAAAAAATATATAATACCTTACTTTAATTG 3 40 1 ATAATACCTT 0.676072 -134 TGCTTGATTTATCTAACCTTATTATTTGGC 3 99 1 ATCTAACCTT 0.802109 -75 AATAAATTATATATTCCCTTTACATAAGAA 7 52 0 ATATTCCCTT 0.834777 -87 AAGTACAGAAACCCCTCATTATGAAT 7 123 0 AGAAACCCCT 0.75546 -16 ATCTTAAACCATAAAACCATCTAAAGATAC 8 70 0 ATAAAACCAT 0.592926 -183 TTTTTATGATAGAATCCCTTT 8 242 1 AGAATCCCTT 0.840425 -11 TAAAAAATAAATTAACCCTTAAGTTTAAAA 13 11 0 ATTAACCCTT 0.801198 -35 AAATCAATAAATCTACCCTTAAAATCAAAA 14 87 1 ATCTACCCTT 0.934919 -177 CACTATAACAATCAACCCATAACATTATTA 14 208 1 ATCAACCCAT 0.869214 -56 CCTTATTAACAGCTACCCTTAGTCTCGGAT 16 17 1 AGCTACCCTT 0.910938 -284 ********** Masking position 1 Map Score: 2.20442 Number of sites scoring better than the average of aligned sites = 137 Number in coding regions = 95 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 10 ********** No masking Map Score: 4.47175e-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: 4.47175e-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: 4.47175e-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