AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00720_ecoli_reg_100.orf -o00720_ecoli_100.ace -a/home/amcguire/alignace/lib/ORF_ecoli.txt -z/skink1/amcguire/genomes/ecoli.fna -g0.51 -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 = 0.51 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 acnB 300 aconitate hydrase B #2 citC 291 citrate lyase synthetase (citrate (pro-3S)-lyase ligase #3 sdhC 300 succinate dehydrogenase, cytochrome b556 #4 BIME45 63 BIME #5 sucC 85 succinyl-CoA synthetase, beta subunit #6 icdA 201 isocitrate dehydrogenase, specific for NADP+ #7 acnA 300 aconitate hydrase 1 #8 fumC 142 fumarase C= fumarate hydratase Class II; isozyme #9 fumA 198 fumarase A = fumarate hydratase Class I; aerobic isozyme #10 ppsA 300 phosphoenolpyruvate synthase #11 mdh 300 malate dehydrogenase #12 ppc 249 phosphoenolpyruvate carboxylase #13 acs 300 acetyl-CoA synthetase #14 fumB 77 fumarase B= fumarate hydratase Class I; anaerobic isozyme #15 dcuB 300 anaerobic dicarboxylate transport #16 frdA 294 fumarate reductase, anaerobic, flavoprotein subunit Motif number 1 GTGAAGAGAATCGCCTGCCGCACTATGACAATGAGAGCG 1 260 1 TCTGCCGCTC 0.995941 -41 GTGAACAGCCTATACTGCCGCCAGGTCTCCGGAACACCC 3 67 1 TATGCCGCTC 0.985281 -234 TCAGAGATTATGAATTGCCGCATTATAGCCTAATAACGC 6 18 1 TGTGCCGCTC 0.994978 -184 ACTGGTTTGCTCGTCTGCCACCACGTTGCATATGCGTTT 6 153 0 TCTGCCACTC 0.983815 -49 CACCTCTCCTTCGAGCGCTACTGGTTTGCTCGTCTGCCA 6 172 0 TCCGCTACTC 0.782326 -30 GGTTGTCATTTGCTTTGCCACAAGGTTTCTCCTCTTTTA 7 169 1 TGTGCCACTC 0.980029 -132 GATATGTTGCTCCGCTGCCGCGACCTTAATCCACAAAAT 11 242 0 TCTGCCGCTA 0.950824 -59 AGCGGTGACGTCAAATGCTGCGAAATCGCTTCAGCAAAC 12 110 0 TCTGCTGCTC 0.97423 -140 CTTCAAAAATTACCCTGCCGTTTATTTGCACAATTCTAC 13 170 1 TATGCCGTTC 0.911605 -131 TATTCGAAAATGGCGTGCCGCGTAGTCACGGGCGGCACG 14 21 0 TGTGCCGCTC 0.994978 -57 GCGTAAAATTTGTCTCGCCGTCGCGTTGCGAGTAGACTT 16 12 0 TGCGCCGTTC 0.921344 -283 ** ****** * * Masking position 16 Map Score: 14.6658 Number of sites scoring better than the average of aligned sites = 349 Number in coding regions = 311 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 2 GGTGATAATCACCTTTCTCAACGAATCCCAAGA 1 54 0 ACTTCCAACG 0.536216 -247 AGCGTGAAGAGAATCGCCTGCCGCACTATGACA 1 257 1 GATGCTGCCG 0.962562 -44 AAATAAATCAAAATTTCACGCCGAAATACTCCT 2 213 1 AATTCCGCCG 0.913536 -79 TGGAAGCAGTGTTTTGCATGACGCGCAGTTATA 3 151 1 GTTGCTGACG 0.879444 -150 AATAACGCGCATCTTTCATGACGGCAAACAATA 6 49 1 ATTTCTGACG 0.832198 -153 GATAACACAAACATCGCGTAACGATTTGATAAC 7 220 0 ACTGCTAACG 0.869357 -81 AGTGAGCTAAAAGTTGCTTAACGAAAGCAAAAC 8 86 1 AATGCTAACG 0.913976 -57 GAAGAGAGCAGATTTGCGCAACGCTGGGATCAG 10 151 1 GATGCCAACG 0.730841 -150 TTTTAAGCAGAATTTGCATGCCGTGACGCAGGC 11 14 0 AATGCTGCCG 0.983821 -287 GGTGGTGACAATATACCCTACCGTTCAGCCAAA 11 77 0 ATTCCTACCG 0.705921 -224 ATAAACGCTAAACTTGCGTGACTACACATTCTT 11 185 1 AATGCTGACT 0.653051 -116 GACCTTCAAAAATTACCCTGCCGTTTATTTGCA 13 167 1 AATCCTGCCG 0.935447 -134 ATGCACTTTGCGTGCCGCCCGTGACTA 14 5 1 ACTGCTGCCG 0.974416 -73 TGTTATTCGAAAATGGCGTGCCGCGTAGTCACG 14 30 0 AATGCTGCCG 0.983821 -48 CCTGCGTAAAATTTGTCTCGCCGTCGCGTTGCG 16 21 0 ATTTCCGCCG 0.845674 -274 ** * ** ***** Masking position 4 Map Score: 13.8872 Number of sites scoring better than the average of aligned sites = 863 Number in coding regions = 810 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 3 TGTTTTCCTTGCGGGTTGTCCCGAGC 2 2 1 GTCTTGGGGT 0.969767 -290 TCCTTCCTCCGGTCTGCTTGCGGGTCAGACAGCGT 3 190 0 GTCTTGGGGT 0.969767 -111 GGAATAATAAGAACAGCATGTGGGCGTTATTC 3 279 1 GACATGGGGC 0.887397 -22 CGAATATTTCGTATCGCTTCCGGGCATTGTCGGTC 5 15 0 GCCTTCGGGC 0.996202 -71 TTTCTCTGTCGATGCTCTTCTGGGCCGAACTCCTC 7 95 1 GCCTTCGGGC 0.996202 -206 GCGAAGCCCTGATTCTCTTCAGGGTGAATATTAAA 7 253 0 GCCTTCGGGT 0.992565 -48 ACAGAGCCGCCCTTCGGGGCGGTTTTTTTA 8 6 1 GCCTTCGGGC 0.995481 -137 GTGGTTATTTGTTACACATAGGGGC 13 1 0 GCCATAGGGC 0.927657 -300 ATCCCACAGCCACGTACTTCAGGGTAAGTACCTGA 16 248 0 CTCTTCGGGT 0.883485 -47 * * **** **** Masking position 9 Map Score: 9.78981 Number of sites scoring better than the average of aligned sites = 124 Number in coding regions = 108 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 4 TTTGATTCAACATTTTAATTACATCCGTCAAAG 2 39 0 CTTTATTACA 0.908394 -253 CATCGCGTAACGATTTGATAACAACCCAAATTG 7 209 0 CTTTATAACA 0.956331 -92 CCCTTCGGGGCGGTTTTTTTACATGGCACGAAA 8 20 1 CTTTTTTACA 0.935558 -123 TTATTATTTACCATTTGATAACAAATGTTTGGT 8 54 0 CTTTATAACA 0.956332 -89 ATATCCTACACACTTTTTTAACAAAAACTGAGA 9 102 0 CTTTTTAACA 0.969754 -97 AAAACAACATCAATTTGATAACAATTAATTTAC 11 47 0 CTTTATAACA 0.956332 -254 TTACTTGGGGCGATTTTTTAACATTTCCATAAG 12 22 1 CTTTTTAACA 0.969754 -228 CAGTATCTTCCTCTTTTTCAACAGCATGCATAA 13 96 1 CTTTTCAACA 0.869902 -205 AATTACCCTGCCGTTTATTTGCACAATTCTACT 13 177 1 CTTTTTTGCA 0.751718 -124 GCTTATGCCACATATTATTAACATCCTACAAGG 13 267 1 CATTTTAACA 0.81856 -34 * *** ****** Masking position 6 Map Score: 10.1958 Number of sites scoring better than the average of aligned sites = 70 Number in coding regions = 36 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 5 ACCATGCGAATTAACGAAGTTTTTACGGAGGGA 1 84 1 TTACGAGTTT 0.896544 -217 CAGCCACTTTTTTATGTTGCTTTTTTGTAAACA 1 145 1 TTATGTGTTT 0.846184 -156 TAGCAGGATTTTGACGAGGTGTTAATCTGTTTA 1 172 0 TTACGAGGTT 0.727263 -129 AAATCAAAATTTCACGCCGAAATACTCCTTAGG 2 217 1 TTACGCGAAT 0.896566 -75 AATCCCTGTTTTAATGTGGAAATTAATCCCACT 9 15 1 TTATGTGAAT 0.727091 -184 TCCAGGTTACTTCCCGTAGGATTCTTGCTTTAA 9 49 0 TTCCGTGATT 0.865513 -150 ATACCGATGGTTTATGTGGAAATTGTCGAAGAG 10 124 1 TTATGTGAAT 0.727091 -177 TTAATTTACTTTTAAGCAGAATTTGCATGCCGT 11 23 0 TTAAGCGATT 0.644325 -278 TGTTATCAAATTGATGTTGTTTTGGCTGAACGG 11 57 1 TTATGTGTTT 0.846184 -244 CGTCATTAAATTCACGACGCTTTAAATAAGCGT 12 57 0 TTACGAGTTT 0.896545 -193 CGTCACCGCTTTTACGTGGCTTTATAAAAGACG 12 139 1 TTACGTGTTT 0.950344 -111 CCCTGTATCCTTCACGTCGCATTGGCGCGAATA 12 193 0 TTACGTGATT 0.956844 -57 GTGCATAAATTTGCCGCTGCTTTAATCAGCCAA 15 137 1 TTCCGCGTTT 0.838587 -164 CGAGACAAATTTTACGCAGGAATCAAACAGCGG 16 34 1 TTACGCGAAT 0.896566 -261 ** **** * *** Masking position 2 Map Score: 9.15324 Number of sites scoring better than the average of aligned sites = 333 Number in coding regions = 296 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 6 GGGTAAATGCCCAGTACCGCAACGGGCAGA 1 206 0 CCAGTACCGC 0.745893 -95 TGAAGAGAATCGCCTGCCGCACTATGACAA 1 261 1 CGCCTGCCGC 0.980246 -40 TGCGGGTTGTCCCGAGCCTCTTTGACGGAT 2 20 1 CCCGAGCCTC 0.907726 -272 TGAACAGCCTATACTGCCGCCAGGTCTCCG 3 68 1 ATACTGCCGC 0.671254 -233 ACCCTGCAATCCCGAGCCACCCAGCGTTGT 3 102 1 CCCGAGCCAC 0.961323 -199 GCAAATGACAACCCCGCCGCAGCGGGGTCA 7 152 0 ACCCCGCCGC 0.922727 -149 ACAGAGCCGCCCTTCGGGGC 8 1 1 ACAGAGCCGC 0.927042 -142 GGGAAGTAACCTGGAGCCGCAAAAAGTCGT 9 67 1 CTGGAGCCGC 0.819404 -132 GAATTTGCATGCCGTGACGCAGGCATG 11 8 0 GCCGTGACGC 0.838214 -293 ATATGTTGCTCCGCTGCCGCGACCTTAATC 11 250 0 CCGCTGCCGC 0.974181 -51 ATTACCCCAGACACCCCATCTTAT 12 236 0 CCCCAGACAC 0.700801 -14 TTCAAAAATTACCCTGCCGTTTATTTGCAC 13 171 1 ACCCTGCCGT 0.743116 -130 ATGCACTTTGCGTGCCGCCCGTGACTAC 14 9 1 TGCGTGCCGC 0.847124 -69 ATTCGAAAATGGCGTGCCGCGTAGTCACGG 14 29 0 GGCGTGCCGC 0.937913 -49 TGTTTTTATCCCACAGCCACGTACTTCAGG 16 260 0 CCACAGCCAC 0.862493 -35 ********** Masking position 8 Map Score: 8.67877 Number of sites scoring better than the average of aligned sites = 3419 Number in coding regions = 3255 Number in noncoding regions = 164 Number of orfs with sites within 600 bp upstream = 151 Fraction of orfs with sites within 600 bp upstream = 0.0242531 Motif number 7 ACTTTTTTATGTTGCTTTTTTGTAAACAGATTA 1 150 1 GTTCTTTTGT 0.878134 -151 AGAGTTAGTGGTTTTTTATTTATTTAATGATTT 2 175 0 GTTTTTTTAT 0.796889 -117 TAGGTTAATTGTAATGATTTTGTGAACAGCCTA 3 46 1 GTATGTTTGT 0.626322 -255 GCAATTTTTTGTTAATGATTTGTAATTGGCTTG 6 94 0 GTTATTTTGT 0.96445 -108 ACCCTTAACGGTTATTATTTTGTGTTGAGATAA 7 12 0 GTTTTTTTGT 0.951707 -289 TTTTCTTTCTGTTTTGCTTTCGTTAAGCAACTT 8 96 0 GTTTGTTCGT 0.695343 -47 GCTTCTGTGCGTTTTTAATTTATGCTTTCA 10 8 0 GTTTTTTTAT 0.796889 -293 AGTCACGCAAGTTTAGCGTTTATGCATTTAATT 11 175 0 GTTAGTTTAT 0.798633 -126 TGGCAGTTTTGTTTAGTATTTGGGCGACAGATC 13 217 0 GTTAGTTTGG 0.758573 -84 CTTGTAGGATGTTAATAATATGTGGCATAAGCG 13 266 0 GTTATTATGT 0.742736 -35 ATATTTATCGGTCTATTTTTTGTTCTCA 15 6 0 GTCATTTTGT 0.823237 -295 CTGCGCAGATGTTAATGTTTTGTTTGCTGTTAT 15 46 0 GTTATTTTGT 0.96445 -255 CTGGCGATGGGTTTATAGTTTGTACTGCGCAGA 15 70 0 GTTATTTTGT 0.96445 -231 *** ** ***** Masking position 9 Map Score: 6.19953 Number of sites scoring better than the average of aligned sites = 106 Number in coding regions = 56 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 8 GCCGGAGAAGGCGATAATGCCTTATCCGGT 4 37 0 GCGATAATGC 0.975141 -27 GGGTGACCGACAATGCCCGGAAGCGA 5 7 1 CCGACAATGC 0.940069 -79 AGGCTATAATGCGGCAATTCATAATCTCTG 6 19 0 GCGGCAATTC 0.901684 -183 CAGAGAAAACGCGCCCATCCAGGACCAATA 7 73 0 GCGCCCATCC 0.953776 -228 TTGGAATGTTGCGCTAATGCATAAGCGACT 11 112 1 GCGCTAATGC 0.983984 -189 GAGCATATTCGCGCCAATGCGACGTGAAGG 12 188 1 GCGCCAATGC 0.992257 -62 GTGAACCCTCGCGATAATCCTATTTAAATT 15 279 0 GCGATAATCC 0.953803 -22 ********** Masking position 7 Map Score: 4.15266 Number of sites scoring better than the average of aligned sites = 259 Number in coding regions = 246 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 9 ATTACGAAATGACTCGCAGGTTTAAGTGATTTA 2 122 0 GATCCGGTTT 0.945504 -170 ATTTCACATAGAGTTAGTGGTTTTTTATTTATT 2 184 0 GATTGGGTTT 0.557517 -108 CCTACATATAGTTTGTCGGGTTTTATCCTGAAC 3 17 0 GTTGCGGTTT 0.93004 -284 AGCTCCTCCTTAATGACAGGGTTGCGAAGCCCT 7 278 0 TATGCGGGTT 0.824717 -23 GATTAATTTTTTCTTTCTGTTTTGCTTTCGTTA 8 104 0 TTTTCGTTTT 0.670118 -39 GATCAATCCCTGTTTTAATGTGGAAA 9 4 1 CATCCGTTTT 0.75482 -195 AAAGTCGTACTAGTCTCAGTTTTTGTTAAAAAA 9 89 1 TATCCGTTTT 0.920579 -110 TTCTCTCACTTACTGCCTGGTTTGGTTATGCTC 9 174 0 TATGCGGTTT 0.964798 -25 CGTTCTACGCTTCTGTGCGTTTTTAATTTATGC 10 16 0 TTTGGGTTTT 0.65621 -285 GCGTAGAACGTTATGTCTGGTTTATAAAATGAA 10 39 1 TTTGCGGTTT 0.934276 -262 TTGCTTGAACGATTCACCGTTTTTTTCATCCGG 10 207 1 GATCCGTTTT 0.915541 -94 AATGTAGGGGTATTGGCAGTTTTGTTTAGTATT 13 230 0 TATGCGTTTT 0.944824 -71 ** ** * ***** Masking position 4 Map Score: 2.92762 Number of sites scoring better than the average of aligned sites = 525 Number in coding regions = 447 Number in noncoding regions = 78 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 10 ATTTCCTTCCTCCGGTCTGCTTGCGGGTCA 3 198 0 TCCGGTCTGC 0.992879 -103 TAATGCCTTATCCGGTCTACAGTGCAGGTG 4 23 0 TCCGGTCTAC 0.989034 -41 ATACGAAATATTCGGTCTACGGTTTAAAAG 5 36 1 TTCGGTCTAC 0.970648 -50 ACCTGAAAGTTACGGTCTGCGAACGCTATT 16 224 0 TACGGTCTGC 0.980826 -71 ********** Masking position 6 Map Score: 2.05128 Number of sites scoring better than the average of aligned sites = 24 Number in coding regions = 16 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 11 GAATCGTTAAGGATGGTCTAGAGATTGTTTCCC 1 113 0 GGTGTCTGAG 0.975774 -188 TTTTCCTTGCGGGTTGTCCCGAGCCTCTTTGAC 2 13 1 GGTTTCCGAG 0.989971 -279 CGGGATTGCAGGGTGTTCCGGAGACCTGGCGGC 3 83 0 GGTGTCCGAG 0.991681 -218 GGTATTTTCAGAGATTATGAATT 6 1 1 GGATTTCGAG 0.908443 -201 CCTGCGATACGGATGCTTTAGAGCAATTTTTTG 6 116 0 GGTGTTTGAG 0.951224 -86 TGTGATAAGCGGCTTTTTCAGAGAGAAAGACTC 15 104 0 GGTTTTCGAG 0.979505 -197 AATTTAAATAGGATTATCGCGAGGGTTCACAC 15 279 1 GGTTTCGGAG 0.965558 -22 ** ** *** *** Masking position 12 Map Score: 4.60041 Number of sites scoring better than the average of aligned sites = 30 Number in coding regions = 21 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 12 TCACCATGCGAATTAACGAAGTTTTTACGGAGG 1 82 1 AATTAAAGTT 0.816738 -219 TAAAATGTTGAATCAAAATACATAGATATTAAT 2 55 1 AATCAAACAT 0.723663 -237 TCATTAAATCAATTAAATCACTTAAACCTGCGA 2 109 1 AATTAAACTT 0.963247 -183 TAATTACATTAATTAAAAAACTTAAAATCATTA 2 151 1 AATTAAACTT 0.964164 -141 AAATCATTACAATTAACCTACATATAGTTTGTC 3 33 0 AATTAAACAT 0.907883 -268 ATTTGATAACAATTAATTTACTTTTAAGCAGAA 11 35 0 AATTAAACTT 0.939914 -266 TTCCTCAAAGAATTAATCAACTTTTGTTGCTGA 13 136 1 AATTAAACTT 0.964164 -165 TTAGTAATTAAATTAATCATCTTCAGTGATAAT 16 101 1 AATTAATCTT 0.828369 -194 ****** **** Masking position 6 Map Score: 3.97235 Number of sites scoring better than the average of aligned sites = 13 Number in coding regions = 6 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 13 CATAAAAAAGTGGCTGAATCGTTAAGGATGG 1 130 0 TGGCTGAACG 0.986719 -171 GTACCGCAACGGGCAGAATAGCAGGATTTTG 1 192 0 GGGCAGAAAG 0.87215 -109 TTGGGAGAAAGGGGGTGATCGA 2 280 0 TGGGAGAAGG 0.820774 -12 GAAAGGACGCTGTCTGACCCGCAAGCAGACC 3 184 1 TGTCTGACCG 0.7807 -117 TGCAACGTGGTGGCAGACGAGCAAACCAGTA 6 162 1 TGGCAGACAG 0.934519 -40 GATGTTGTTTTGGCTGAACGGTAGGGTATAT 11 69 1 TGGCTGAAGG 0.974894 -232 ATTTATTCGTTTGCTGAAGCGATTTCGCAGC 12 102 1 TTGCTGAACG 0.936018 -148 TAATAATATGTGGCATAAGCGTTAAATGTAG 13 256 0 TGGCATAACG 0.855317 -45 ATTTAAATTTTTGCTGAATAGATCACAGTCA 15 257 0 TTGCTGAAAG 0.876286 -44 ******** ** Masking position 7 Map Score: 1.4876 Number of sites scoring better than the average of aligned sites = 839 Number in coding regions = 805 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 14 GGACTACGGGCACAGAGGTTAACTTTCTGTTA 3 243 0 CACAGGTTAA 0.947512 -58 GCCCGTAGTCCCCAGGGAATAATAAGAACAGC 3 264 1 CCCAGGATAA 0.984642 -37 GGAACACCCGCCCAGAGCATAACCAAACCAGG 9 160 1 CCCAGGATAA 0.984642 -39 AGCCGCTTATCACAGTGCATAAATTTGCCGCT 15 123 1 CACAGGATAA 0.983442 -178 GCAAATACCTCACAGTGAATATTGGCTGATTA 15 159 0 CACAGGATAT 0.947512 -142 ***** * **** Masking position 4 Map Score: 1.17575 Number of sites scoring better than the average of aligned sites = 25 Number in coding regions = 20 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 15 AATCTGTTTACAAAAAAGCAACATAAAAAA 1 152 0 CAAAAAAGCA 0.796413 -149 GTAACGATTTGATAACAACCCAAATTGATA 7 206 0 GATAACAACC 0.509391 -95 TTAACGAAAGCAAAACAGAAAGAAAAAATT 8 103 1 CAAAACAGAA 0.887101 -40 TATTTTTTATGAAAACAGCATTTCATTTTT 10 82 1 GAAAACAGCA 0.953626 -219 ACCGTTCAGCCAAAACAACATCAATTTGAT 11 61 0 CAAAACAACA 0.887101 -240 CAACAGCATGCATAACTGCATGTTCCTCAA 13 114 1 CATAACTGCA 0.868673 -187 AAATACTAAACAAAACTGCCAATACCCCTA 13 229 1 CAAAACTGCC 0.860406 -72 ATATCAATAAGATAACAGCAAACAAAACAT 15 35 1 GATAACAGCA 0.915162 -266 ACAGTTCATACAAAACAGAACGTGACTGTG 15 235 1 CAAAACAGAA 0.887101 -66 ********** Masking position 5 Map Score: 2.10759 Number of sites scoring better than the average of aligned sites = 689 Number in coding regions = 575 Number in noncoding regions = 114 Number of orfs with sites within 600 bp upstream = 128 Fraction of orfs with sites within 600 bp upstream = 0.0205589