AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i293_synecho_ctra_300.orf -o293_synecho_ctra_300.ace -a/home/amcguire/genomes/ORF_synecho.txt -z/home/amcguire/genomes/synecho.fna -g0.46 -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 = 0.46 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 RCY10363 283 Synechocystis #2 RCY02904 72 Synechocystis #3 RCY45270 150 Synechocystis #4 RCY53977 169 Synechocystis #5 RCY06830 23 Synechocystis #6 RCY08607 154 Synechocystis #7 RCY23581 300 Synechocystis #8 RCY23989 257 Synechocystis #9 RCY21643 109 Synechocystis #10 RCY42175 94 Synechocystis #11 RCY09697 66 Synechocystis #12 RCY14174 300 Synechocystis #13 RCY42662 233 Synechocystis #14 RCY39566 239 Synechocystis #15 RCT00090 300 Chlamydia_trachomatis #16 RCT00765 300 Chlamydia_trachomatis #17 RCT00779 300 Chlamydia_trachomatis #18 RCT00803 97 Chlamydia_trachomatis #19 RCT00804 160 Chlamydia_trachomatis Motif number 1 TGTTGTTCTCTGGGTTGGCGATTGGGGTGAAAATCGG 1 100 1 TGTGGCGTGG 0.690682 -184 GACAAATCCCTGGAGTGGCCAATGATGTCTGGGAGCT 1 158 1 TGTGGCCAGG 0.96224 -126 TCCACTGCCCTCGGAGGCGACAATCAT 2 56 0 TCTGCCCCGG 0.888458 -17 CTTCTCAGAAACAATTGGCCACTGTAGCGAAAAAATG 3 46 0 ACTGGCCCGG 0.820307 -105 TAGGATCATTAGGCTTTGCCACCGCTGGAGCCAGCAA 4 63 1 AGTTGCCCGG 0.952253 -107 CCGTCCAACTAGCATTGCCCTTGGGATACATTCTACC 4 103 1 AGTGCCCTGT 0.654235 -67 TGGCTAGGAAAGCTCTGCCCAAGGTCGGTAAATACCC 7 75 1 AGTGCCCAGG 0.945441 -226 TCACGCCCCACTGGATTGCCTCAGGGGTTGAACGTCC 8 78 0 CTTTGCCCGG 0.595346 -180 GGTTTAGATCTGCCTTTGCCGTCAACGATGGGAGAAT 8 205 1 TGTTGCCTAG 0.79443 -53 GAATTCGGCTTGAGCTTGCCCCGATCGCCA 8 238 1 TGTTGCCCAG 0.814718 -20 AATTGTTTGTTGCGTGGCCATTGTCGACTATTAACC 10 69 0 TTTGGCCTGG 0.929308 -26 TAATTTTTTCTGGGATTCCCCAGGCGGCGATCGCCAG 12 27 0 TGTTCCCAGG 0.949284 -274 AGCAAAAATGAGAAATGCCCACCGGGGCAAAATTTTC 12 138 1 AGTGCCCCGG 0.9699 -163 AGTTTTATCGAGGAATTCCCCTGGCTGTCAATGGCGG 12 174 0 AGTTCCCTGG 0.950234 -127 TCTTCCCAGTTTTTGCTCCCCATGTCGAATTTTTCCC 13 58 0 TTCTCCCAGG 0.602303 -176 GCAGATTACTGGTGTTTCCCTTAGTCGGGTGCCCGGA 13 190 0 GGTTCCCTGG 0.816891 -44 CAAAAAGTTTAGAGTTGCCCAAAGTCTAGAAAATTAA 14 111 0 AGTGCCCAGT 0.536615 -129 CTTTTTGTTAAGGTTTTGCCAACGGTGACTGGCTGGT 14 141 1 AGTTGCCAGG 0.914728 -99 CCTTTTCTGTTTTTTCGCCCATAGATGGCCAGTTGCT 15 27 1 TTCGCCCTGG 0.78587 -274 TTATCAAGCCTTCTGTTCCCTTAGATGGCCCCAATCG 16 100 0 TTTTCCCTGG 0.906157 -201 CCTTAAGGGCTTCTTTTCCCTCAACCGGATGAACGGT 16 229 0 TTTTCCCCAG 0.601979 -72 TAAAAGGCCTTTGAATGGCCTTAAGGGCTTCTTTTCC 16 247 0 TTTGGCCTAG 0.644089 -54 TAGTGTTTTTGGGGCTGCCCTAGTGGGTTCAGCAGA 19 10 1 TGCTGCCTGG 0.877965 -151 ** ***** * * * Masking position 9 Map Score: 23.7546 Number of sites scoring better than the average of aligned sites = 2756 Number in coding regions = 2614 Number in noncoding regions = 142 Number of orfs with sites within 600 bp upstream = 163 Fraction of orfs with sites within 600 bp upstream = 0.0261805 Motif number 2 TATTGTTGTTCTCTGGGTTGGCGATTGGGGT 1 97 1 CTCTGGGTTG 0.979478 -187 CCTGACAAATCCCTGGAGTGGCCAATGATGT 1 155 1 CCCTGGAGTG 0.803267 -129 TGTCTGGGAGCTTGGGGTTAGAAGTTTTTGG 1 183 1 CTTGGGGTTG 0.976303 -101 TGCGGAAAATCTGTGGGGGAGACAGGAGCCA 1 247 0 CTGTGGGGGG 0.96888 -37 GGTTAGGAAACTGGGGGATAGAACCCGAAAT 4 11 1 CTGGGGGATG 0.925599 -159 ATGGCGATCGCCTGGGGGGCGACACTGGGCC 7 230 0 CCTGGGGGGG 0.952655 -71 ACTGGATTGCCTCAGGGGTTGAACGTCCGCT 8 75 0 CTCAGGGGTG 0.960223 -183 TAAACCACGACTGTGGATGGGGGAAGCAACC 8 180 0 CTGTGGATGG 0.693181 -78 AGCAGAAAAACTTTGGGTGTGGGGCCGTAAT 12 222 1 CTTTGGGTGG 0.959321 -79 GGATCGAAAACCCTGGGTTTGCTTCCGGGCA 13 167 1 CCCTGGGTTG 0.956454 -67 TTTGTTTGTATTTGGGGTTAGGTTATAGTTG 14 27 0 TTTGGGGTTG 0.714928 -213 AGACGCTTGGGGGTCGCCTTTTCTGT 15 6 1 CTTGGGGGTG 0.985062 -295 TAAAAGACAACTCTGGGGTGGAAGGATTCGA 16 16 0 CTCTGGGGTG 0.987079 -285 AAAGGATATTCTTAGGGATAGAGCA 17 286 1 CTTAGGGATG 0.804475 -15 ********* * Masking position 6 Map Score: 16.7184 Number of sites scoring better than the average of aligned sites = 787 Number in coding regions = 710 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 3 CTATACTAGAAGAATAATTTTTAATGATTGT 2 33 1 AGAATATTTT 0.469723 -40 GTGGCGCTCCAGAAAAAAAGTGCGCTAGGCG 6 70 1 AGAAAAAAGT 0.748876 -85 GGCGATCGCCAGAAAAATATTCCTACTA 12 8 0 AGAAAATATT 0.941639 -293 GGCACACAGCAGAAAAACTTTGGGTGTGGGG 12 215 1 AGAAAACTTT 0.883152 -86 AACTGGGAAGAGAAATTTATTGGAGGTTAAT 13 84 1 AGAAATTATT 0.613466 -150 CGATCAGGACAGAAAACCATT 14 229 1 AGAAAACATT 0.962724 -11 TTCTTTCTTGAGAAAAACATTTATATACGGT 15 93 0 AGAAAACATT 0.962724 -208 AAGGTAATGGAGAATAGCATTTT 16 288 1 AGAATACATT 0.828956 -13 ATAAGAAGTAAGAAAATAATTATCGAAAACT 17 90 0 AGAAAAAATT 0.85522 -211 TGATTTTCAGAGATAAATATTCCCTATTTTT 17 234 0 AGATAATATT 0.751736 -67 ATTCCGTAATAGAAAATCAGTTGAACGTTTT 18 15 1 AGAAAACAGT 0.928764 -83 CTATGCGCATAGAAAAATTGTGTAAATCTGT 18 57 1 AGAAAATTGT 0.704337 -41 GATTGCTGAAAGAAAAACACTTCTTGTTTTT 19 45 1 AGAAAACACT 0.829451 -116 TCAAACAGGCAGATAATTATTCAATATATCA 19 120 0 AGATAATATT 0.75173 -41 ****** **** Masking position 3 Map Score: 10.1132 Number of sites scoring better than the average of aligned sites = 179 Number in coding regions = 149 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 4 GGCATTGTTGCGGAAAATCTGTGGGGGAGA 1 256 0 CGGAAAATCT 0.9102 -28 ATAACTGCTCCGGGAAATTTCAGGTAAATC 8 113 0 CGGGAAATTT 0.861325 -145 GAATTGTGTGAGGAAAATTTTCAGATGGTT 8 154 1 AGGAAAATTT 0.845401 -104 TGTTTCCCGTGGGAAAAATTGAAAATTTAG 11 29 1 GGGAAAAATT 0.92199 -38 TAGTAGGAATATTTTTCTGGCGAT 12 5 1 AGGAATATTT 0.763266 -296 CTGTCAATGGCGGAAAATTTTGCCCCGGTG 12 157 0 CGGAAAATTT 0.941804 -144 AGCTGCTTTGGGGAATAACTTGGCCGGCTG 12 256 0 GGGAATAACT 0.81359 -45 TCAACGGCTCGGGAAAAATTCGACATGGGG 13 48 1 GGGAAAAATT 0.92199 -186 GCAAATTCAGGGGGAAAACTACCAGCCAGT 14 168 0 GGGGAAAACT 0.739654 -72 CTTTAGAGAACGGAATATTTTTTTTAAAGA 15 168 1 CGGAATATTT 0.905138 -133 GATAAAAATAGGGAATATTTATCTCTGAAA 17 231 1 GGGAATATTT 0.92199 -70 ********** Masking position 5 Map Score: 10.3631 Number of sites scoring better than the average of aligned sites = 560 Number in coding regions = 467 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 113 Fraction of orfs with sites within 600 bp upstream = 0.0181497 Motif number 5 GGTTAGGAAACTGGGGGATA 4 1 1 GGTTAGGAAA 0.933173 -169 AGGAAAGGCAATTTTGGGCCA 5 13 0 GGAAAGGCAA 0.844163 -11 TTTTTTTGCTGGCTAGGAAAGCTCTGCCCA 7 66 1 GGCTAGGAAA 0.980839 -235 CGAAACCTAGGACTAGGAAAGCGCAGACGG 7 182 0 GACTAGGAAA 0.851105 -119 GGAAGAATTGTGTGAGGAAAATTTTCAGAT 8 150 1 TGTGAGGAAA 0.710309 -108 GTATGCTCTAGGCGAGGCAACAGCTTGGGT 10 42 1 GGCGAGGCAA 0.987483 -53 TAAAGAGATTGGCGAGGAAAGAATCCGCTA 13 132 1 GGCGAGGAAA 0.987729 -102 TCGTGATTGGGGCAAGGCAAATTCAGGGGG 14 184 0 GGCAAGGCAA 0.972234 -56 ********** Masking position 5 Map Score: 7.26871 Number of sites scoring better than the average of aligned sites = 208 Number in coding regions = 168 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 6 TGGCGATTGGGGTGAAAATCGGTTTAGACT 1 115 1 GGTGAAAATC 0.710586 -169 TGCCCTCGGAGGCGACAATCATTAAAAATT 2 48 0 GGCGACAATC 0.970829 -25 TGGCTCCAGCGGTGGCAAAGCCTAATGATC 4 66 0 GGTGGCAAAG 0.683269 -104 AGAGATCGTGGGTGGCGCTCCAGAAAAAAA 6 59 1 GGTGGCGCTC 0.962565 -96 TCGCCTGGGGGGCGACACTGGGCCGGAGTT 7 224 0 GGCGACACTG 0.941314 -77 GCTCAACTCTGATGGCGATCGCCTGGGGGG 7 242 0 GATGGCGATC 0.777907 -59 TGGGTTAATAGTCGACAATGGCCACGCAAC 10 67 1 GTCGACAATG 0.68833 -28 GGATTCCCCAGGCGGCGATCGCCAGAAAAA 12 22 0 GGCGGCGATC 0.988319 -279 TCTGTCAAAGGGCGGAGCTGCTTTGGGGAA 12 271 0 GGCGGAGCTG 0.8758 -30 TATACTCAATGGCGACGATCAGGACAGAAA 14 214 1 GGCGACGATC 0.981507 -26 ********** Masking position 4 Map Score: 5.14562 Number of sites scoring better than the average of aligned sites = 1704 Number in coding regions = 1605 Number in noncoding regions = 99 Number of orfs with sites within 600 bp upstream = 122 Fraction of orfs with sites within 600 bp upstream = 0.0195952 Motif number 7 TTCGCTACAGTGGCCAATTGTTTCTGAGAA 3 52 1 TGGCCAATTG 0.859791 -99 TGTATGTTAATTGCCGTCTGCGCTTTCCTA 7 169 1 TTGCCGTCTG 0.956063 -132 GGGAATAACTTGGCCGGCTGAAGATTACGG 12 246 0 TGGCCGGCTG 0.991225 -55 ACTTTATTAGTTGCGGGTTGCGACACAGGG 13 11 0 TTGCGGGTTG 0.883576 -223 CGCCCATAGATGGCCAGTTGCTTAAGCGCT 15 42 1 TGGCCAGTTG 0.969698 -259 TGCCATTTTAAGGCCGTCTGGTATAGCGCG 16 195 1 AGGCCGTCTG 0.908896 -106 GAAGCTTTAGTTGCCTGTTGCATTCTGCTT 17 18 0 TTGCCTGTTG 0.876449 -283 AAAAAGTGAATGGCCGTTTGAATTTTTGTT 17 123 1 TGGCCGTTTG 0.982698 -178 ********** Masking position 9 Map Score: 5.29998 Number of sites scoring better than the average of aligned sites = 380 Number in coding regions = 357 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 8 TTAGCAATGGATGGAGTGGATAATAAACAGTTGTTA 3 96 0 AGGGGATTAA 0.840456 -55 CGAAAATTGTATTGTTAGGATCATTAGGCTTTGCCA 4 48 1 ATTGGATTTA 0.925326 -122 TATGAGAGAAACTTATAGGATTGTTAACATAAGTTT 7 122 1 ATTGGATTTA 0.925326 -179 GAATTTAAAAATTGGGCGGATTTTTACAAATCGTCA 8 26 1 ATGGGATTTA 0.981876 -232 ATGTCTAACTATTTTGAGGATGATTAGGGGGGCAAA 9 83 0 ATGGGATTTA 0.981876 -27 ATAAACAAAGAGTAAGGGGTTCTTTAGAGAACGGAA 15 147 1 ATGGGTTTTA 0.952 -154 AAATTGTGTAAATCTGTGGATAGTTAAGAACGATGC 18 71 1 ATGGGATTTA 0.981876 -27 TTATCTCTATAATTAGAGGTTTATAAACAAAATAAT 19 75 1 ATGGGTTTAA 0.878945 -86 * * * **** *** Masking position 1 Map Score: 4.20304 Number of sites scoring better than the average of aligned sites = 34 Number in coding regions = 27 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 9 TCGATTCTATCCTACCAAAAACTTCTAACCC 1 197 0 CCACCAAAAA 0.766252 -87 CACCGCTGGAGCCAGCAAACACCGTCCAACT 4 82 1 GCAGCAAACA 0.93988 -88 TGGGTGGCGCTCCAGAAAAAAAGTGCGCTAG 6 67 1 TCAGAAAAAA 0.582364 -88 AGCTTTCCTAGCCAGCAAAAAAACCAGACCG 7 58 0 GCAGCAAAAA 0.980192 -243 TACTAGAGTTGCCAGCAAAAATTAA 7 286 1 GCAGCAAAAA 0.980192 -15 GGCGGCGATCGCCAGAAAAATATTCCTACTA 12 11 0 GCAGAAAAAT 0.602175 -290 CCTGGGGAATCCCAGAAAAAATTAGAGAGAG 12 40 1 CCAGAAAAAA 0.879182 -261 CTATAGTTTCGTTAGCAAAAATGAGAAATGC 12 125 1 GTAGCAAAAA 0.916133 -176 ATTCGACATGGGGAGCAAAAACTGGGAAGAG 13 65 1 GGAGCAAAAA 0.865003 -169 TTGGCAAAACCTTAACAAAAAGTTTAGAGTT 14 132 0 CTAACAAAAA 0.552308 -108 CCATCTATGGGCGAAAAAACAGAAAAGGCGA 15 24 0 GCAAAAAACA 0.497991 -277 CTATTTATAACCAAACAAAAATTCAAACGGC 17 135 0 CCAACAAAAA 0.848221 -166 GCATAGTTTTGTTAGCTAAAACGTTCAACTG 18 32 0 GTAGCTAAAA 0.537565 -66 ** ******** Masking position 4 Map Score: 5.75425 Number of sites scoring better than the average of aligned sites = 740 Number in coding regions = 617 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 122 Fraction of orfs with sites within 600 bp upstream = 0.0195952 Motif number 10 CAAGAGCTATCCCGGCGTTCCAAACTTCCC 4 139 1 CCCGGCGTTC 0.985449 -31 AAAATAAATTCTCGGCGTTCCGTGGTCAA 6 10 0 CTCGGCGTTC 0.977312 -145 AAAAAGTGCGCTAGGCGTTGACATCAAATC 6 84 1 CTAGGCGTTG 0.972553 -71 TCTTTTTCAGCCAGGCGTTTTCACGGTCTG 7 35 1 CCAGGCGTTT 0.953594 -266 GTGTCGCCCCCCAGGCGATCGCCATCAGAG 7 236 1 CCAGGCGATC 0.977671 -65 ATGGTATGCTCTAGGCGAGGCAACAGCTTG 10 39 1 CTAGGCGAGG 0.874661 -56 ********** Masking position 5 Map Score: 2.91674 Number of sites scoring better than the average of aligned sites = 632 Number in coding regions = 588 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 11 TTCAGATGGTTGCTTCCCCCATCCACAGTCGT 8 173 1 TGTTCCCCCT 0.975967 -85 CAGTGTGATGTGGTGCCCACCTGATTTTGGTA 9 37 1 TGTGCCCACT 0.936343 -73 TGGGAGACTGTTTTGCCCCCCTAATCATCCTC 9 72 1 TTTGCCCCCT 0.991285 -38 AAATTTTCAATTTTTCCCACGGGAAACATCAA 11 25 0 TTTTCCCACG 0.813316 -42 TGGCGGAAAATTTTGCCCCGGTGGGCATTTCT 12 148 0 TTTGCCCCGT 0.949562 -153 CCTTTTCTGTTTTTTCGCCCATAGATGGCCAG 15 27 1 TTTTCGCCCT 0.922295 -274 GAGTTGTCTTTTATTCCCCCTTAGGTCTGGTT 16 34 1 TTTTCCCCCT 0.986247 -267 TTTTTTGTTTTTATGACCCCCTATTTGATAGA 17 46 0 TTTGACCCCT 0.927019 -255 ** ******* * Masking position 4 Map Score: 4.2087 Number of sites scoring better than the average of aligned sites = 493 Number in coding regions = 421 Number in noncoding regions = 72 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 12 TGCCCCATGGCATTGTTGCGGA 1 272 0 CCCCATGGCA 0.978787 -12 CACAAACTATCACTATTGCACTTTTGGGAT 6 111 0 CACTATTGCA 0.452194 -44 TCGGTAAATACCCCATTGCAGATTATGAGA 7 99 1 CCCCATTGCA 0.98115 -202 CTAGGTTTCGCCCTATTCCAACAACTCCGG 7 202 1 CCCTATTCCA 0.902797 -99 CAGTGTCGCCCCCCAGGCGATCGCCATCAG 7 234 1 CCCCAGGCGA 0.842286 -67 GTAAATCACGCCCCACTGGATTGCCTCAGG 8 90 0 CCCCACTGGA 0.876228 -168 ATGGTTGCTTCCCCCATCCACAGTCGTGGT 8 178 1 CCCCCATCCA 0.765834 -80 CCAAGTTATTCCCCAAAGCAGCTCCGCCCT 12 263 1 CCCCAAAGCA 0.808749 -38 AGTTTTTGCTCCCCATGTCGAATTTTTCCC 13 58 0 CCCCATGTCG 0.764969 -176 TTTACCCCCATGTCATGGCAGATTA 13 219 0 CCCCATGTCA 0.95011 -15 CCTTAGATGGCCCCAATCGAAAATCTCTCC 16 89 0 CCCCAATCGA 0.906946 -212 TTTTATGACCCCCTATTTGATAGAAGCTTT 17 40 0 CCCTATTTGA 0.697025 -261 ********** Masking position 3 Map Score: 4.57287 Number of sites scoring better than the average of aligned sites = 1314 Number in coding regions = 1185 Number in noncoding regions = 129 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647 Motif number 13 CGACACTGGGCCGGAGTTGTTGGAATAGGGCG 7 210 0 CCGAGTGTTG 0.97572 -91 CACTGGATTGCCTCAGGGGTTGAACGTCCGCT 8 75 0 CCCAGGGTTG 0.958758 -183 CTGAAATTTCCCGGAGCAGTTATCCTGAGAGG 8 120 1 CCGAGCGTTA 0.939288 -138 CTTCCCCCATCCACAGTCGTGGTTTAGATCTG 8 185 1 CCCAGTGTGG 0.864303 -73 CGACTATTAACCCAAGCTGTTGCCTCGCCTAG 10 49 0 CCAAGCGTTG 0.9865 -46 AAGTTATTCCCCAAAGCAGCTCCGCCCTTTGA 12 265 1 CCAAGCGCTC 0.794798 -36 TCGAATTTTTCCCGAGCCGTTGACCAAAAAAC 13 39 0 CCGAGCGTTG 0.991668 -195 TTTCATTACCTAAGAAGTTGTACAGCTTTT 15 281 0 CCAAGAGTTG 0.935634 -20 ** **** **** Masking position 5 Map Score: 2.56906 Number of sites scoring better than the average of aligned sites = 196 Number in coding regions = 180 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 14 ********** No masking Map Score: -2.51289e-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 15 CGAAAAAATGCTAAGGATAGAGGCTTTGTAACT 3 23 0 CTAAGGAAGG 0.966819 -128 CGTCACAGTTCTAAGGGTAGCGGACGTTCAACC 8 57 1 CTAAGGGAGG 0.967418 -201 AATTCTTCCTCTCAGGATAACTGCTCCGGGAAA 8 126 0 CTCAGGAATG 0.73764 -132 GCTAACGAAACTATAGGAATTTGAGCTATTTTT 12 108 0 CTATAGGATG 0.485527 -193 TTTGCAAAACCTAAAGAGATTGGCGAGGAAAGA 13 121 1 CTAAAGAAGG 0.96973 -113 GGGCACCCGACTAAGGGAAACACCAGTAATCTG 13 193 1 CTAAGGGAAC 0.672335 -41 CCTTATAGCGCTTAAGCAACTGGCCATCTATGG 15 45 0 CTTAAGCAGG 0.74883 -256 AAATGTTTTTCTCAAGAAAGAAGGTGGCAGATG 15 102 1 CTCAAGAAAG 0.815815 -199 GTAAGGGGTTCTTTAGAGAACGGAATATTTTTT 15 158 1 CTTTAGAAGG 0.705406 -143 AAAAGAAATTCTAAAGAAAAAGCAAGATTAGTG 15 213 0 CTAAAGAAGC 0.909329 -88 CTGTGTTAGCCTTAAGAAAAAGCTGTACAACTT 15 264 1 CTTAAGAAGC 0.799785 -37 TTGGGGCCATCTAAGGGAACAGAAGGCTTGATA 16 103 1 CTAAGGGAGA 0.700554 -198 GGCCTTTTAGCTCAAGGTAATGGAGAATAGCAT 16 275 1 CTCAAGGAGG 0.953371 -26 CTAAAGAAAGCAGAATGCAACAG 17 1 1 CTAAAGAAAG 0.876114 -300 ******* * ** Masking position 9 Map Score: 5.58145 Number of sites scoring better than the average of aligned sites = 317 Number in coding regions = 274 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 54 Fraction of orfs with sites within 600 bp upstream = 0.00867331