AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -imalT_ecoli_hinf_100.orf -g0.5 -x5 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 = 0.5 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 malP 300 maltodextrin phosphorylase #2 malS 300 alpha-amylase #3 malF 153 part of maltose permease, periplasmic #4 malE_malK 364 malE: periplasmic maltose-binding protein; substrate recognition for transport and chemotaxis, malK: ATP-binding component of transport system for maltose #5 lamB 71 phage lambda receptor protein; maltose high-affinity receptor #6 malM 242 periplasmic protein of mal regulon #7 HI0098 216 iron(III) ABC transporter, permease protein (hitB) #8 HI1354 300 glutaminyl-tRNA synthetase (glnS) #9 HI1355 65 conserved hypothetical protein #10 HI1356 61 4-alpha-glucanotransferase (malQ) Motif number 1 ACTCCTCCCTGCCTAATCCCCCGCAGGATGAG 1 209 1 GCCTATCCCC 0.99511 -92 CAGCAATAAGGACTCATCCGCC 2 289 1 GACTATCCGC 0.825781 -12 AGGCGTTCACGCCGCATCCGGCATTTCACAGC 3 12 0 GCCGATCCGC 0.50101 -142 CGGCGTGAACGCCTTGTCCGGCCTACAAAACC 3 30 1 GCCTGTCCGC 0.872743 -124 ACGTATGTAGGCCTGATAAGACGCGTCAGCGT 3 65 1 GCCTATAAGC 0.5845 -89 GACAACAACTGCCTGATGCGACGCTGACGCGT 3 85 0 GCCTATGCGC 0.694817 -69 AGGCTTTCACGCCTTATCCGACAACAACTGCC 3 104 0 GCCTATCCGC 0.910845 -50 AGGCGTGAAAGCCTTATCCGTCCTGGAATGAG 3 122 1 GCCTATCCGC 0.76148 -32 TCATCCTCCCGCCTCCTCCCCCATAAAAAAGC 4 107 0 GCCTCTCCCC 0.968518 -258 CGGCGTAAACGCCTTATCCGGCCCAGGTTTTG 6 14 0 GCCTATCCGC 0.529084 -229 GGCGTTGGTTGCCGAATGCGGCGTAAACGCCT 6 32 0 GCCGATGCGC 0.521979 -211 GGCAACCAACGCCTGATGCGACGCTTGCGCGT 6 51 1 GCCTATGCGC 0.694817 -192 GCCGTTGTAGGCCTGATAAGACGCGCAAGCGT 6 71 0 GCCTATAAGC 0.5845 -172 CGGCGTAAACGCCTTATCCGGCCTACATTTGA 6 105 0 GCCTATCCGC 0.529084 -138 AGGCGTTTACGCCGCATCCGGCATAAAAACAG 6 123 1 GCCGATCCGC 0.50101 -120 **** ***** * Masking position 7 Map Score: 60.1353 Number of sites scoring better than the average of aligned sites = 686 Number in coding regions = 144 Number in noncoding regions = 542 Number of orfs with sites within 600 bp upstream = 102 Fraction of orfs with sites within 600 bp upstream = 0.0163829 Motif number 2 CTCATCCTGCGGGGGATTAGGCAGGGAGGAGT 1 209 0 GGGGGATGGC 0.820381 -92 ATTTTCAACACAACGTTATCGCTAGTTTGCCA 1 259 0 CAACGTTCGC 0.916836 -42 CAGAAAATGTGGGGGTTATCGCAAAATTCAGC 2 155 1 GGGGGTTCGC 0.992192 -146 AAGCAAGGGTGAGCGATCTCGCGCAAAAAACG 2 187 0 GAGCGATCGC 0.912016 -114 AGGCCGGACAAGGCGTTCACGCCGCATCCGGC 3 22 0 AGGCGTTCGC 0.996348 -132 CTGCCTGATGCGACGCTGACGCGTCTTATCAG 3 77 0 CGACGCTCGC 0.983457 -77 AGGACGGATAAGGCTTTCACGCCTTATCCGAC 3 114 0 AGGCTTTCGC 0.969409 -40 GAGGATGGAAAGAGGTTGCCGTATAAAGAAAC 4 290 1 AGAGGTTCGT 0.708585 -75 GGGCCGGATAAGGCGTTTACGCCGCATTCGGC 6 22 1 AGGCGTTCGC 0.996348 -221 ACGCCTGATGCGACGCTTGCGCGTCTTATCAG 6 59 1 CGACGCTCGC 0.983457 -184 AGGCCGGATAAGGCGTTTACGCCGCATCCGGC 6 113 1 AGGCGTTCGC 0.996348 -130 CGATAATCAGAGGGGCTTTCGCCCCTTTCAGA 6 165 0 AGGGGCTCGC 0.989744 -78 CTCTGATTATCGGGTTTAGCGCGCTATTGCCT 6 185 1 CGGGTTTCGC 0.960026 -58 CCTGCATTCACGGCGATACCGCTTTTTAATGT 8 33 0 CGGCGATCGC 0.993172 -268 ******* *** Masking position 7 Map Score: 28.8792 Number of sites scoring better than the average of aligned sites = 1537 Number in coding regions = 1057 Number in noncoding regions = 480 Number of orfs with sites within 600 bp upstream = 125 Fraction of orfs with sites within 600 bp upstream = 0.0200771 Motif number 3 TATCTAAGTGCAAAAAATGGCCGTTGCGTATTT 1 79 0 CAAAAGGCCG 0.833402 -222 CTCATCCCCGCAACTCCTCCCTGCCTAATCCCC 1 197 1 CAACCCCCTG 0.972922 -104 GAGGAAGGTCAACATCGAGCCTGGCAAACTAGC 1 238 1 AACACGCCTG 0.931994 -63 CGATCTCGCGCAAAAAACGGCTGAATTTTGCGA 2 173 0 CAAAAGGCTG 0.932221 -128 AAGCCAAACAAAACTCATCCCTGAGCGGTAAGT 2 231 0 AAACCCCCTG 0.898671 -70 CCTTATCCGACAACAACTGCCTGATGCGACGCT 3 92 0 CAACAGCCTG 0.978401 -62 TTAAATCCTCCACCCCCTGGCTTTTTTATGGGG 4 88 1 CACCCGGCTT 0.537793 -277 CGGTTTAGTTCACAGAAGCCGTGTTCTCATCCT 4 132 0 CACAACCGTG 0.815485 -233 AGAGATCACACAAAGCGACGGTGGGGCGTAGGG 4 252 1 CAAACCGGTG 0.875097 -113 CCCCACAAAACACACAAAGCCTGTCACAGGTGA 5 14 1 CACAAGCCTG 0.956958 -58 TAGCAAAACCTGGGCCGGATAAGGCGT 6 5 1 AAAACGGCCG 0.755069 -238 CCGCATTCGGCAACCAACGCCTGATGCGACGCT 6 43 1 CAACAGCCTG 0.978397 -200 ACGCCTGATGCGACGCTTGCGCGTCTTATCAGG 6 59 1 CGACCGCGCG 0.747815 -184 TCCAAATATTGCGTGCGTGTATTTG 7 3 1 CAAAAGCGTG 0.957364 -214 AGAGAATTGTAAACGCGTGCGTGAATTTTTTCA 7 34 0 AAACCGCGTG 0.947136 -183 TAACAAAATTAACCGCTTGCGTGCGTGAACTGA 7 66 1 AACCCGCGTG 0.917144 -151 TTTAGCTTACCAAACCCAGCCAGCTCCCATTTG 8 87 0 CAAACGCCAG 0.88879 -214 CAAGTGCGGTCAAAACAAACGTGATTTTGACCG 9 22 1 CAAACACGTG 0.77348 -44 **** * ***** Masking position 2 Map Score: 19.5376 Number of sites scoring better than the average of aligned sites = 2891 Number in coding regions = 2709 Number in noncoding regions = 182 Number of orfs with sites within 600 bp upstream = 176 Fraction of orfs with sites within 600 bp upstream = 0.0282686 Motif number 4 CCTGCGGGGGATTAGGCAGGGAGGAGTTGC 1 206 0 ATTAGGCAGG 0.736264 -95 CGTTATCGCTAGTTTGCCAGGCTCGATGTT 1 248 0 AGTTTGCCAG 0.923603 -53 GATTTCAGACAGTTTGCCAGCGATAAGCCA 2 258 0 AGTTTGCCAG 0.923603 -43 GTTTCGGTTTTGTAGGCCGGACAAGGCGTT 3 37 0 TGTAGGCCGG 0.991989 -117 CCGAAACGTATGTAGGCCTGATAAGACGCG 3 60 1 TGTAGGCCTG 0.979758 -94 ATCGCCACGATTTTTGCAAGCAACATCACG 4 183 0 TTTTTGCAAG 0.632075 -182 TGACAGCCGTTGTAGGCCTGATAAGACGCG 6 78 0 TGTAGGCCTG 0.979758 -165 GGCTGTCAAATGTAGGCCGGATAAGGCGTT 6 100 1 TGTAGGCCGG 0.991989 -143 ACAACCTGTTTTTATGCCGGATGCGGCGTA 6 130 0 TTTATGCCGG 0.971347 -113 GCTTCCGTTATGTTTGCCGTTTCTGTATGT 7 178 1 TGTTTGCCGT 0.859513 -39 AATTTTGCTGTTTTTGCCTGCATTCACGGC 8 51 0 TTTTTGCCTG 0.917704 -250 ********** Masking position 3 Map Score: 13.9222 Number of sites scoring better than the average of aligned sites = 993 Number in coding regions = 644 Number in noncoding regions = 349 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 5 CATTTCCTTGCTCATCCCCGCAACTCCTCCC 1 187 1 CTCATCCCGC 0.994275 -114 ATCCCCGCAACTCCTCCCTGCCTAATCCCCC 1 200 1 CTCCTCCCGC 0.995054 -101 GTTGACCTTCCTCATCCTGCGGGGGATTAGG 1 220 0 CTCATCCTCG 0.96558 -81 CGCGAGATCGCTCACCCTTGCTTCTCATCCT 2 196 1 CTCACCCTGC 0.974097 -105 ACCCTTGCTTCTCATCCTGTGGACTTACCGC 2 209 1 CTCATCCTTG 0.843157 -92 CCAAACAAAACTCATCCCTGAGCGGTAAGTC 2 230 0 CTCATCCCGA 0.971589 -71 GGGGTTCTTCCTCATTCCAGGACGGATAAGG 3 133 0 CTCATTCCGG 0.846828 -21 TTAAATCCTCCACCCCCTGGCTTTTTTATGG 4 88 1 CACCCCCTGC 0.846977 -277 ATCCTCCCGCCTCCTCCCCCATAAAAAAGCC 4 106 0 CTCCTCCCCA 0.958481 -259 AAGCCGTGTTCTCATCCTCCCGCCTCCTCCC 4 119 0 CTCATCCTCC 0.984431 -246 ACCTCTTTCCATCCTCCTTGCCCCTACGCCC 4 275 0 ATCCTCCTGC 0.900186 -90 ATACGCCTCCCTCCACTACATCAC 8 4 1 CGCCTCCCCC 0.956669 -297 ******** ** Masking position 7 Map Score: 16.7569 Number of sites scoring better than the average of aligned sites = 305 Number in coding regions = 265 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 6 CAGGGAGGAGTTGCGGGGATGAGCAAGGAA 1 190 0 TTGCGGGGAT 0.825997 -111 TATCGCTAGTTTGCCAGGCTCGATGTTGAC 1 245 0 TTGCCAGGCT 0.916888 -56 TTCAGACAGTTTGCCAGCGATAAGCCAAAC 2 255 0 TTGCCAGCGA 0.911489 -46 TTTCGTGATGTTGCTTGCAAAAATCGTGGC 4 180 1 TTGCTTGCAA 0.649834 -185 TAGCGCGCTATTGCCTGGCTACCGCTGAGC 6 201 1 TTGCCTGGCT 0.972155 -42 TCCAAATATTGCGTGCGTGTATTTGAAA 7 9 1 TTGCGTGCGT 0.982016 -208 AATTAACCGCTTGCGTGCGTGAACTGAAAA 7 72 1 TTGCGTGCGT 0.982016 -145 GGATTTAACTTTGCCTCGCAGACCGCCATT 7 118 1 TTGCCTCGCA 0.755397 -99 GTATGTCATTTTGCGTGCGACAGAA 7 202 1 TTGCGTGCGA 0.972916 -15 TTTGCTGTTTTTGCCTGCATTCACGGCGAT 8 48 0 TTGCCTGCAT 0.964145 -253 ********** Masking position 2 Map Score: 9.7136 Number of sites scoring better than the average of aligned sites = 639 Number in coding regions = 601 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 7 TCATATCAAAAATAGCTGTCAAGAGCACCC 2 63 1 AATAGCTGTC 0.864235 -238 TCGCGCAAAAAACGGCTGAATTTTGCGATA 2 171 0 AACGGCTGAA 0.749334 -130 AACATTCATGATGGGCTGACTATGCGTCAT 4 47 1 ATGGGCTGAC 0.788466 -318 CTGTTACAGAATTGGCGGTAATGTGGAGAT 4 224 0 ATTGGCGGTA 0.866529 -141 TCAGGCCTACAACGGCTGTCAAATGTAGGC 6 87 1 AACGGCTGTC 0.961411 -156 AGTGAGCCAGAATGGCGGTCTGCGAGGCAA 7 128 0 AATGGCGGTC 0.982055 -89 CATCACATTAAAAAGCGGTATCGCCGTGAA 8 29 1 AAAAGCGGTA 0.716022 -272 TAAATGCACAAAGTGCGGTAAGTTTTTTGA 8 123 0 AAGTGCGGTA 0.949635 -178 TTAATCAACCAAGTGCGGTCAAAACAAACG 9 13 1 AAGTGCGGTC 0.977867 -53 TACAAATAAAAAGTGCGGTCAAAATCACGT 9 40 0 AAGTGCGGTC 0.977867 -26 ********** Masking position 1 Map Score: 7.77732 Number of sites scoring better than the average of aligned sites = 686 Number in coding regions = 640 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 8 TATAGAGTTACCTTCCGCTTTTTGAAAATACG 1 54 1 CCTTCGTTTT 0.955235 -247 AAAAAATGGCCGTTGCGTATTTTCAAAAAGCG 1 69 0 CGTTCGATTT 0.918226 -232 GGCCTACATACGTTTCGGTTTTGTAGGCCGGA 3 46 0 CGTTCGTTTT 0.987624 -108 TCCTCCACCCCCTGGCTTTTTTATGGGGGAGG 4 93 1 CCTGCTTTTT 0.854707 -272 TTGCAAAAATCGTGGCGATTTTATGTGCGCAT 4 194 1 CGTGCGTTTT 0.992203 -171 AACTAGAGTCCGTTTAGGTGTTTTCACGAGCA 4 319 1 CGTTAGTGTT 0.906383 -46 TAAACGCGTGCGTGAATTTTTTCAAATACACG 7 26 0 CGTGATTTTT 0.861252 -191 GCACAAAGTGCGGTAAGTTTTTTGAATGTTTA 8 116 0 CGGTAGTTTT 0.824432 -185 ACGAAATTATCGTGGCGATGTATAAATGCACA 8 143 0 CGTGCGTGTA 0.885052 -158 ACGATAATTTCGTGGCGGTTTTTTATGGCAAG 8 162 1 CGTGCGTTTT 0.992203 -139 **** ** **** Masking position 11 Map Score: 8.78192 Number of sites scoring better than the average of aligned sites = 611 Number in coding regions = 557 Number in noncoding regions = 54 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 9 CTGATGCGACGCTTGCGCGTCTTATCAGGC 6 63 1 GCTTGCGCGT 0.958809 -180 TCCAAATATTGCGTGCGTGTATTTGAAAAA 7 11 1 GCGTGCGTGT 0.995237 -206 AATTGTAAACGCGTGCGTGAATTTTTTCAA 7 33 0 GCGTGCGTGA 0.996654 -184 TTAACCGCTTGCGTGCGTGAACTGAAAAGT 7 74 1 GCGTGCGTGA 0.996654 -143 ATGTCATTTTGCGTGCGACAGAA 7 204 1 GCGTGCGACA 0.971485 -13 ********** Masking position 4 Map Score: 6.78387 Number of sites scoring better than the average of aligned sites = 105 Number in coding regions = 103 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 10 TAATCATTCCAACACCTTATATTTTTCAC 2 10 1 CAACACCTTA 0.916382 -291 GGATTTAAGCCATCTCCTGATGACGCATAG 4 66 0 CATCTCCTGA 0.963082 -299 ACAAAACACACAAAGCCTGTCACAGGTGAT 5 18 1 CAAAGCCTGT 0.922534 -54 TCTTTTTTCACATCACCTGTGACAGGCTTT 5 29 0 CATCACCTGT 0.946861 -43 TCTATCTCCTGAGTCATTGCTT 5 60 0 TATCTCCTGA 0.718899 -12 TAGCAAAACCTGGGCCGGATAAG 6 4 1 CAAAACCTGG 0.677147 -239 AATGCGGCGTAAACGCCTTATCCGGCCCAG 6 20 0 AAACGCCTTA 0.828426 -223 ATTCGGCAACCAACGCCTGATGCGACGCTT 6 47 1 CAACGCCTGA 0.991235 -196 ATCAGGCCTACAACGGCTGTCAAATGTAGG 6 86 1 CAACGGCTGT 0.900288 -157 GATGCGGCGTAAACGCCTTATCCGGCCTAC 6 111 0 AAACGCCTTA 0.828426 -132 AATAAAGGTTCATCTCCTGTTCTTGCCATA 8 227 0 CATCTCCTGT 0.946861 -74 ********** Masking position 2 Map Score: 7.75514 Number of sites scoring better than the average of aligned sites = 2131 Number in coding regions = 2010 Number in noncoding regions = 121 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 11 TTCCTTGCTCATCCCCGCAACTCCTCCCTG 1 190 1 ATCCCCGCAA 0.785345 -111 TTGGCGCTAAATCGCAGAAAATGTGGGGGT 2 141 1 ATCGCAGAAA 0.791492 -160 TTTTGCGATAACCCCCACATTTTCTGCGAT 2 151 0 ACCCCCACAT 0.898284 -150 TGTGGGGGTTATCGCAAAATTCAGCCGTTT 2 162 1 ATCGCAAAAT 0.882895 -139 ACTGTCTGAAATCGCAGCAATAAGGACTCA 2 275 1 ATCGCAGCAA 0.889365 -26 CCTGTCATCGACAGCAACATTCATGATGGG 4 32 1 ACAGCAACAT 0.778658 -333 CGCACATAAAATCGCCACGATTTTTGCAAG 4 193 0 ATCGCCACGA 0.92837 -172 TTATGTGCGCATCTCCACATTACCGCCAAT 4 214 1 ATCTCCACAT 0.824491 -151 TCTCCACATTACCGCCAATTCTGTAACAGA 4 225 1 ACCGCCAATT 0.711442 -140 TGTTTTCACCTCAAAATCTGGAGCTCA 6 226 0 ACCTCAAAAT 0.560071 -17 GCAGGCAAAAACAGCAAAATTTCCTATCAA 8 60 1 ACAGCAAAAT 0.624229 -241 GCATTTATACATCGCCACGATAATTTCGTG 8 146 1 ATCGCCACGA 0.92837 -155 GCCATAAAAAACCGCCACGAAATTATCGTG 8 161 0 ACCGCCACGA 0.940304 -140 TTTGTATAGAATAGCCGAATATTTTTTTAT 8 267 1 ATAGCCGAAT 0.657455 -34 ********** Masking position 1 Map Score: 6.9107 Number of sites scoring better than the average of aligned sites = 3658 Number in coding regions = 3450 Number in noncoding regions = 208 Number of orfs with sites within 600 bp upstream = 215 Fraction of orfs with sites within 600 bp upstream = 0.0345326 Motif number 12 TTATAGAGTTACCTTCCGCTTTTTGAAAAT 1 53 1 ACCTTCCGCT 0.905081 -248 GATCTCAACCACTTAAAGCTAGTGCAAACC 1 156 0 ACTTAAAGCT 0.652766 -145 TTCAACACAACGTTATCGCTAGTTTGCCAG 1 258 0 CGTTATCGCT 0.819712 -43 AAAATGTGGGGGTTATCGCAAAATTCAGCC 2 158 1 GGTTATCGCA 0.79391 -143 CATCCTGTGGACTTACCGCTCAGGGATGAG 2 221 1 ACTTACCGCT 0.98406 -80 GTTTTGTTTGGCTTATCGCTGGCAAACTGT 2 250 1 GCTTATCGCT 0.95944 -51 GCTATTGCCTGGCTACCGCTGAGCTCCAGA 6 207 1 GGCTACCGCT 0.938372 -36 CATTCAAAAAACTTACCGCACTTTGTGCAT 8 120 1 ACTTACCGCA 0.951244 -181 AGTTGTCATCACTTTCAGCTTAGCTATAAT 10 15 1 ACTTTCAGCT 0.793459 -47 ********** Masking position 4 Map Score: 2.97715 Number of sites scoring better than the average of aligned sites = 712 Number in coding regions = 670 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 13 GCTTGCAAAAATCGTGGCGATTTTATGTGC 4 192 1 ATCGTGGCGA 0.992272 -173 TTTGCCTGCATTCACGGCGATACCGCTTTT 8 39 0 TTCACGGCGA 0.949891 -262 CCACGAAATTATCGTGGCGATGTATAAATG 8 147 0 ATCGTGGCGA 0.992272 -154 CCACGATAATTTCGTGGCGGTTTTTTATGG 8 160 1 TTCGTGGCGG 0.986897 -141 ********** Masking position 2 Map Score: 1.71191 Number of sites scoring better than the average of aligned sites = 155 Number in coding regions = 146 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 14 TGTTGAAAATCTAAGAAAAGTGGAACTCCT 1 281 1 CTAAGAAAAG 0.881478 -20 TCAAAAATAGCTGTCAAGAGCACCCCAAGG 2 68 1 CTGTCAAGAG 0.948968 -233 TGCTGTGAAATGCCGGATGCGG 3 3 1 CTGTGAAATG 0.89981 -151 CCTACAACGGCTGTCAAATGTAGGCCGGAT 6 92 1 CTGTCAAATG 0.955121 -151 TTACAATTCTCTAACAAAATTAACCGCTTG 7 55 1 CTAACAAAAT 0.695705 -162 GCAAAATTTCCTATCAAATGGGAGCTGGCT 8 73 1 CTATCAAATG 0.946306 -228 GCTATAATCCCTAACAAGAGTTATACAGTT 10 37 1 CTAACAAGAG 0.922239 -25 ********** Masking position 6 Map Score: 1.03349 Number of sites scoring better than the average of aligned sites = 185 Number in coding regions = 156 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 15 TTAGCGCCAATCTGAATCGTTAACACGTGA 2 121 0 TCTGAATCGT 0.816132 -180 GGCCTACAAAACCGAAACGTATGTAGGCCT 3 49 1 ACCGAAACGT 0.936064 -105 TCGTGAAAACACCTAAACGGACTCTAGTTT 4 318 0 ACCTAAACGG 0.936061 -47 GTTGTCATTATCTGAAAGGGGCGAAAGCCC 6 155 1 TCTGAAAGGG 0.876727 -88 GCGTGCGTGAACTGAAAAGTTCACATTCCT 7 84 1 ACTGAAAAGT 0.767782 -133 AAGTTCACATTCCTAAAAGGATTTAACTTT 7 100 1 TCCTAAAAGG 0.79976 -117 TTACTTATCATCTTAATCGGGCTTCCGTTA 7 158 1 TCTTAATCGG 0.816132 -59 AAAATGACATACAGAAACGGCAAACATAAC 7 184 0 ACAGAAACGG 0.904103 -33 ********** Masking position 5 Map Score: 0.100981 Number of sites scoring better than the average of aligned sites = 614 Number in coding regions = 549 Number in noncoding regions = 65 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856