AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -isoxS_ecoli_bsub_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 araD 284 L-ribulose-5-phosphate 4-epimerase #2 araB_araC 338 araB: L-ribulokinase, araC: transcriptional regulator for ara operon #3 fumC 142 fumarase C= fumarate hydratase Class II; isozyme #4 zwf 300 glucose-6-phosphate dehydrogenase #5 yeiH 98 orf, hypothetical protein #6 nfo 73 endonuclease IV #7 ompC 300 outer membrane protein 1b (Ib;c) #8 sodA 284 superoxide dismutase, manganese #9 soxS 85 regulation of superoxide response regulon #10 yqjJ 226 similar to glucose-6-phosphate 1-dehydrogenase (pentose phosphate) #11 sodA 178 superoxide dismutase #12 yqfR 168 similar to ATP-dependent RNA helicase #13 yrpD 300 similar to hypothetical proteins from B. subtilis #14 araA 207 L-arabinose isomerase #15 citG 300 fumarate hydratase Motif number 1 CAGGCGTTACATACCGGATGCGGCTAC 1 6 0 AACCGATGCG 0.968246 -279 CCGGTATGTAACGCCTGATGCGACGCTGACGC 1 21 1 AGCCGATGCG 0.998148 -264 CGCAGCGTGTAGGCCAGATAAGACGCGTCAGC 1 45 0 AGCCGATAAG 0.989631 -240 GCGATTTTGTAGGCCGGATAAGCAAAGCGCAT 1 74 1 AGCCGATAAG 0.989631 -211 CAGGCGTTGAATGCCGGATGCGCTTTGCTTAT 1 91 0 AGCCGATGCG 0.998148 -194 CCGGCATTCAACGCCTGATGCGACGCTGGCGC 1 106 1 AGCCGATGCG 0.998148 -179 CGCAGCGCGTAGGCCTGATAAGACGCGCCAGC 1 130 0 AGCCGATAAG 0.989631 -155 GCGATTTTGTAGGCCGGATAAGCAAAGCGCAT 1 159 1 AGCCGATAAG 0.989631 -126 CAGGCGTTGAATGCCGGATGCGCTTTGCTTAT 1 176 0 AGCCGATGCG 0.998148 -109 CCGGCATTCAACGCCTGATGCGACGCTGGCGC 1 191 1 AGCCGATGCG 0.998148 -94 CGCAGCGTGTAGGCCTGATAAGACGCGCCAGC 1 215 0 AGCCGATAAG 0.989631 -70 GCGATTTTGTAGGCCGGATAAGCAAAGCGCAT 1 244 1 AGCCGATAAG 0.989631 -41 TGACTCCTTCGTGCCGGATGCGCTTTGCTTAT 1 261 0 GGCCGATGCG 0.987439 -24 AGTGACGGCAATGTCTGATGCAATATGGACAA 2 47 0 AGTCGATGCA 0.765973 -292 AATCGACCGTTTGCCAGATGCACAAAGTCATA 13 170 1 TGCCGATGCA 0.850596 -131 * *** ****** Masking position 8 Map Score: 50.8896 Number of sites scoring better than the average of aligned sites = 615 Number in coding regions = 164 Number in noncoding regions = 451 Number of orfs with sites within 600 bp upstream = 105 Fraction of orfs with sites within 600 bp upstream = 0.0168648 Motif number 2 AATCGCAGCGTGTAGGCCAGATAAGACGCG 1 50 0 TGTAGGCCAG 0.984841 -235 GCTGCGATTTTGTAGGCCGGATAAGCAAAG 1 71 1 TGTAGGCCGG 0.995676 -214 CATCAGGCGTTGAATGCCGGATGCGCTTTG 1 96 0 TGAATGCCGG 0.974696 -189 AATCGCAGCGCGTAGGCCTGATAAGACGCG 1 135 0 CGTAGGCCTG 0.962046 -150 GCTGCGATTTTGTAGGCCGGATAAGCAAAG 1 156 1 TGTAGGCCGG 0.995676 -129 CATCAGGCGTTGAATGCCGGATGCGCTTTG 1 181 0 TGAATGCCGG 0.974696 -104 AATCGCAGCGTGTAGGCCTGATAAGACGCG 1 220 0 TGTAGGCCTG 0.978421 -65 GCTGCGATTTTGTAGGCCGGATAAGCAAAG 1 241 1 TGTAGGCCGG 0.995676 -44 AAAACCGCCCCGAAGGGCGGCTCTGT 3 7 0 CGAAGGGCGG 0.934848 -136 CTTAATGCCGTGATTGCCAGTAAATCGACA 8 105 0 TGATTGCCAG 0.729487 -180 TCTCCAGTATTGTCGGGCGGCCGATTGTTA 8 260 0 TGTCGGGCGG 0.911663 -25 GCGAATCGACCGTTTGCCAGATGCACAAAG 13 167 1 CGTTTGCCAG 0.74403 -134 ********** Masking position 8 Map Score: 24.1628 Number of sites scoring better than the average of aligned sites = 465 Number in coding regions = 189 Number in noncoding regions = 276 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 3 GCCTACACGCTGCGATTTTGTAGGCCGGATA 1 63 1 TGCGTTTTGT 0.972649 -222 GAATGCCGGATGCGCTTTGCTTATCCGGCCT 1 84 0 TGCGTTTGCT 0.969471 -201 GCCTACGCGCTGCGATTTTGTAGGCCGGATA 1 148 1 TGCGTTTTGT 0.972649 -137 GAATGCCGGATGCGCTTTGCTTATCCGGCCT 1 169 0 TGCGTTTGCT 0.969471 -116 GCCTACACGCTGCGATTTTGTAGGCCGGATA 1 233 1 TGCGTTTTGT 0.972649 -52 TCGTGCCGGATGCGCTTTGCTTATCCGGCCT 1 254 0 TGCGTTTGCT 0.969471 -31 TGGCTTTGGTCCCGCTTTGTTACAGAATGCT 2 132 0 CCCGTTTGTT 0.758057 -207 ACTTTTGTTACGCGTTTTTGTCATGGCTTTG 2 155 0 CGCGTTTTGT 0.966896 -184 TTTCTCCATACCCGTTTTTTTGGATGGAGTG 2 313 1 CCCGTTTTTT 0.778209 -26 CGCCCTTCGGGGCGGTTTTTTTACATGGCAC 3 18 1 GGCGTTTTTT 0.776661 -125 ATTTTTTCTTTCTGTTTTGCTTTCGTTAAGC 3 101 0 TCTGTTTGCT 0.730293 -42 GAAATCGAAATGCAGTTTTGTCAGATATTAC 4 17 1 TGCATTTTGT 0.768227 -284 AACTTTTTTATCTGCTTTTGTCATTAACACG 4 58 0 TCTGTTTTGT 0.752001 -243 CCGCACTTTGCGCGCTTTTCCCGTAATCGCA 4 163 1 CGCGTTTTCC 0.872069 -138 AGGGTATACTTGTAATTTTCTTACGGTGCAC 4 242 0 TGTATTTTCT 0.398974 -59 GCATTAAGTGGGTGATTTGCTTCACATCTCG 8 127 1 GGTGTTTGCT 0.687902 -158 TCACATTATACCCGATTTTGCTTAAAAACAC 12 108 0 CCCGTTTTGC 0.743739 -61 **** ****** Masking position 6 Map Score: 17.9095 Number of sites scoring better than the average of aligned sites = 1088 Number in coding regions = 955 Number in noncoding regions = 133 Number of orfs with sites within 600 bp upstream = 122 Fraction of orfs with sites within 600 bp upstream = 0.0195952 Motif number 4 TGATGCGACGCTGACGCGTCTTATCTGGCCTAC 1 36 1 CTGCGCTTTA 0.985011 -249 TGATGCGACGCTGGCGCGTCTTATCAGGCCTAC 1 121 1 CTGCGCTTTA 0.985011 -164 TGATGCGACGCTGGCGCGTCTTATCAGGCCTAC 1 206 1 CTGCGCTTTA 0.985011 -79 GCGTCTTTTACTGGCTCTTCTCGCTAACCCAAC 2 79 1 CTGCTCTTCG 0.921563 -260 CGGATCCTACCTGACGCTTTTTATCGCAACTCT 2 274 1 CTGCGCTTTA 0.985011 -65 ACCACTACATCTTGCTCCTGTTAACCCGCTATC 6 11 1 CTTCTCTTTA 0.949117 -63 GTCGATTAACCTTTCGCCTGTTGCCGCCGTTGT 8 75 1 CTTCGCTTTG 0.911576 -210 AAATCTGCCTCTTTTCAGTGTTCAGTT 9 69 0 CTGCTCTTCA 0.971347 -17 GTTTCCTTCCTCCTACTAGAACCAGATA 10 6 1 CTTCTCTCTA 0.762026 -221 AGCTCACGATTTGGCTCATTTCAGCGGACATAT 11 59 0 TTGCTCTTCA 0.824876 -120 TGTTTTCTCTCTTTCCCCTCTTATTTCTCCCCC 13 44 1 CTTCCCTTTA 0.926209 -257 CATTATTTCCCCCTATCATTATAATTAG 13 283 0 TTTCCCTTCA 0.589269 -18 *** *** * *** Masking position 9 Map Score: 14.0194 Number of sites scoring better than the average of aligned sites = 256 Number in coding regions = 153 Number in noncoding regions = 103 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 5 GCATCCGGTATGTAACGCCTGATGCGACGC 1 17 1 TGTAACGCCT 0.722408 -268 TAACGCCTGATGCGACGCTGACGCGTCTTA 1 29 1 TGCGACGCTG 0.962493 -256 CAACGCCTGATGCGACGCTGGCGCGTCTTA 1 114 1 TGCGACGCTG 0.962493 -171 CAACGCCTGATGCGACGCTGGCGCGTCTTA 1 199 1 TGCGACGCTG 0.962493 -86 TAGACACTTTTGTTACGCGTTTTTGTCATG 2 161 0 TGTTACGCGT 0.860478 -178 CATAGCAAAGTGTGACGCCGTGCAAATAAT 2 217 0 TGTGACGCCG 0.96864 -122 ATTACGCCTGTGTGCCGTGTTAATGACAAA 4 43 1 TGTGCCGTGT 0.858753 -258 TCGTCGGAGATGTGACGCGACGAAAAATGA 8 24 0 TGTGACGCGA 0.933453 -261 AAAGGCTCGCTGTGAAGCGTCATTTCAGTA 11 135 1 TGTGAAGCGT 0.915791 -44 GGACACATAATGTGCCGCTTTAAGGAGCTG 12 143 1 TGTGCCGCTT 0.964838 -26 AAAAATCTCCTGTGAAGTGTAAATGTTACG 13 130 0 TGTGAAGTGT 0.601754 -171 TAGCCTTACCTGTGCCACTTCGTATCCTCC 15 47 0 TGTGCCACTT 0.663168 -254 ********** Masking position 1 Map Score: 9.40222 Number of sites scoring better than the average of aligned sites = 1018 Number in coding regions = 818 Number in noncoding regions = 200 Number of orfs with sites within 600 bp upstream = 111 Fraction of orfs with sites within 600 bp upstream = 0.0178285 Motif number 6 CAGATAAGACGCGTCAGCGTCGCATCAGGCGTT 1 30 0 GCGGCGTCGC 0.925883 -255 GTCTTATCTGGCCTACACGCTGCGATTTTGTAG 1 53 1 GCCACGCTGC 0.98473 -232 CTGATAAGACGCGCCAGCGTCGCATCAGGCGTT 1 115 0 GCGGCGTCGC 0.925883 -170 GTCTTATCAGGCCTACGCGCTGCGATTTTGTAG 1 138 1 GCCGCGCTGC 0.995787 -147 CTGATAAGACGCGCCAGCGTCGCATCAGGCGTT 1 200 0 GCGGCGTCGC 0.925883 -85 GTCTTATCAGGCCTACACGCTGCGATTTTGTAG 1 223 1 GCCACGCTGC 0.98473 -62 CAGATATTACGCCTGTGTGCCGTGTTAATGACA 4 38 1 GCCGTGCCGT 0.891481 -263 *** ******* Masking position 9 Map Score: 7.49018 Number of sites scoring better than the average of aligned sites = 782 Number in coding regions = 495 Number in noncoding regions = 287 Number of orfs with sites within 600 bp upstream = 103 Fraction of orfs with sites within 600 bp upstream = 0.0165435 Motif number 7 CTATGCCATAGCATTTTTATCCATAAGATTAGCGGATCC 2 242 1 GTTTTTATAT 0.755347 -97 CACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACG 8 149 1 GTTTTTAAAA 0.972998 -136 CAAATCGTGAGCTTTTTCATTGATTACAAAGCATTCTTT 11 79 1 GTTTTTATAA 0.951445 -100 ATCGAGACTTGTGTTTTATTGAAATAGAAAAGCTATAGA 13 80 0 GTTTTTAAAA 0.973899 -221 TTTTCATAATGTTTTATAATACAAGATGATAGCGTTTTC 13 245 1 GTTATTAAAA 0.854834 -56 GGCAGAGCCCGGCTTTTTATTCAATAGGACGGCCAGCCC 14 21 0 GTTTTTAAAA 0.973899 -187 CTCTGCCCCCGGCTTTTTTTAAAAGAAAAGATTGACAGT 14 53 1 GTTTTTAAAA 0.973899 -155 GTATTTGAAAGCGTTTTATTTTATGAGAAAGGGGCAGTT 14 176 1 GTTTTTATAA 0.951445 -32 CATGGAGTAAGTTTTTTTATGAAAGCGGAGGATACGAAG 15 21 1 GTTTTTAACA 0.89721 -280 * **** * ** * * Masking position 10 Map Score: 4.65152 Number of sites scoring better than the average of aligned sites = 41 Number in coding regions = 23 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 8 CAGAATGCTTTTAATAAGCGGGGTTACCGGTT 2 109 0 TTAATAAGGG 0.882591 -230 AAAGAAAAAATTAATCAGGTGAGGAGCAGGTC 3 121 1 TTAATCAGGA 0.826499 -22 GTTAGTTAACTTAAGGAGAATGAC 4 287 1 TTAAGGAGTG 0.950572 -14 TATGCCCGGTTAAAGGAGAGGGTT 5 85 1 TAAAGGAGGG 0.902441 -14 TTAACCCTCATTAATCAGTCGGCAAGTCCATT 7 223 0 TTAATCAGGG 0.979835 -78 TTAATGAGGGTTAATCAGTATGCAGTGGCATA 7 241 1 TTAATCAGTG 0.940917 -60 TTAATGCCGCGTAAGCAGTTGGTTCATTATAG 8 231 0 GTAAGCAGGG 0.957092 -54 AAGCCCTTTTTTAAGCAGAATGCTGAAAAAAT 10 113 0 TTAAGCAGTG 0.969029 -114 ATGTGCCGCTTTAAGGAGCTGGGAAAA 12 152 1 TTAAGGAGGG 0.983244 -17 ******** ** Masking position 7 Map Score: 4.97622 Number of sites scoring better than the average of aligned sites = 167 Number in coding regions = 149 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 9 GCCATGTAAAAAAACCGCCCCGAAGGGCGGC 3 16 0 AAAACCGCCC 0.915177 -127 CATTGGGTAAAAATCTGACACTGATCATGTT 4 104 0 AAATCTGACC 0.915811 -197 GCGGCATTAACAATCGGCCGCCCGACAATAC 8 253 1 CAATCGGCCC 0.915084 -32 AAATCTGCCTCTTTTCAGTGT 9 75 0 AAATCTGCCC 0.991068 -11 CTGCCCCATTAAACCTGCCGCCAGCATTTC 11 10 0 AAACCTGCCC 0.971545 -169 CTTTAACCGATAATCTGCCCCATTAAACCTG 11 24 0 TAATCTGCCC 0.985749 -155 GATGGACACATAATGTGCCGCTTTAAGGAGC 12 140 1 TAATGTGCCC 0.909503 -29 GTAAACTGCCCCTTTCTCATAA 14 196 0 TAAACTGCCC 0.962008 -12 ATTAAAATTAAAATCTGCCAAGATCGAAAAA 15 211 1 AAATCTGCCA 0.915811 -90 ********* * Masking position 3 Map Score: 7.97897 Number of sites scoring better than the average of aligned sites = 265 Number in coding regions = 245 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 10 TGGACTTTTCTGCCGTGATTATAGACACTT 2 182 0 TGCCGTGATT 0.970502 -157 TTATCAGTTTTGCCGCACTTTGCGCGCTTT 4 151 1 TGCCGCACTT 0.958013 -150 TGCGCGCTTTTCCCGTAATCGCACGGGTGG 4 171 1 TCCCGTAATC 0.882953 -130 ACCCACTTAATGCCGTGATTGCCAGTAAAT 8 110 0 TGCCGTGATT 0.970502 -175 TGATTATCAATGCCGTACTTTTCGTAAGGG 8 180 0 TGCCGTACTT 0.984228 -105 GGATTTGTCCTGCCGTACTCCTTTGATGTA 15 142 0 TGCCGTACTC 0.981037 -159 ********** Masking position 9 Map Score: 3.494 Number of sites scoring better than the average of aligned sites = 96 Number in coding regions = 89 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 11 CCGCTTATTAAAAGCATTCTGTAACAAAGC 2 120 1 AAAGCATTCT 0.939624 -219 TTGCTATGCCATAGCATTTTTATCCATAAG 2 239 1 ATAGCATTTT 0.909623 -100 AACTTGAGGTAAAGCGATTT 9 1 0 AAAGCGATTT 0.824337 -85 CATTGATTACAAAGCATTCTTTTGTTACAT 11 96 1 AAAGCATTCT 0.939624 -83 ATACAAGATGATAGCGTTTTCTAATTATAA 13 263 1 ATAGCGTTTT 0.92208 -38 TTTGTATTTGAAAGCGTTTTATTTTATGAG 14 173 1 AAAGCGTTTT 0.932836 -35 CGAAAAATAAAAAGGATTTTTTGTGTCATT 15 235 1 AAAGGATTTT 0.816492 -66 ********** Masking position 3 Map Score: 2.70605 Number of sites scoring better than the average of aligned sites = 103 Number in coding regions = 97 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 12 AATGTGGACTTTTCTGCCGTGATTATAGACA 2 185 0 TTCTGCCGTG 0.976386 -154 ATAGCAAAGTGTGACGCCGTGCAAATAATCA 2 215 0 GTACGCCGTG 0.950012 -124 TTTTTTATCAGTTTTGCCGCACTTTGCGCGC 4 147 1 GTTTGCCGCA 0.736619 -154 CTTTCGCCTGTTGCCGCCGTTGTCGATTTAC 8 85 1 TTCCGCCGTT 0.81774 -200 AATCACCCACTTAATGCCGTGATTGCCAGTA 8 113 0 TTATGCCGTG 0.971623 -172 AAAATGATTATCAATGCCGTACTTTTCGTAA 8 183 0 TCATGCCGTA 0.814927 -102 CGGCCGATTGTTAATGCCGCGTAAGCAGTTG 8 242 0 TTATGCCGCG 0.950954 -43 TTTTGGATTTGTCCTGCCGTACTCCTTTGAT 15 145 0 GTCTGCCGTA 0.95151 -156 ** ******** Masking position 6 Map Score: 1.07991 Number of sites scoring better than the average of aligned sites = 409 Number in coding regions = 385 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 13 TATGTAACGCCTGATGCGACGCTGACGCGT 1 25 1 CTGATGCGAC 0.955099 -260 TGATGCGACGCTGACGCGTCTTATCTGGCC 1 36 1 CTGACGCGTC 0.811637 -249 CATTCAACGCCTGATGCGACGCTGGCGCGT 1 110 1 CTGATGCGAC 0.955099 -175 CATTCAACGCCTGATGCGACGCTGGCGCGT 1 195 1 CTGATGCGAC 0.955099 -90 TTTTGCTTTCGTTAAGCAACTTTTAGCTCA 3 88 0 GTTAAGCAAC 0.839956 -55 CTTTATAAGTGGTAAGCGACT 5 2 0 GGTAAGCGAC 0.820432 -97 CGTCGGAGATGTGACGCGACGAAAAATGAT 8 23 0 GTGACGCGAC 0.980526 -262 CAGGCGAAAGGTTAATCGACAGCACGATTT 8 65 0 GTTAATCGAC 0.840024 -220 GTGATTGCCAGTAAATCGACAACGGCGGCA 8 96 0 GTAAATCGAC 0.785642 -189 TGCCCGAGATGTGAAGCAAATCACCCACTT 8 132 0 GTGAAGCAAA 0.610435 -153 TTAACTTGAGGTAAAGCGATTT 9 3 0 GTAAAGCGAT 0.571102 -83 AAGGCTCGCTGTGAAGCGTCATTTCAGTAC 11 136 1 GTGAAGCGTC 0.960975 -43 TTTCACGATTGCGAATCGACCGTTTGCCAG 13 157 1 GCGAATCGAC 0.789576 -144 TTATGATCTATTGAAGCAACCGTTATGGAG 15 271 1 TTGAAGCAAC 0.675166 -30 ********** Masking position 4 Map Score: 8.40077 Number of sites scoring better than the average of aligned sites = 920 Number in coding regions = 739 Number in noncoding regions = 181 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 14 TCCCACCATTCAGAGAAGAAACCAATTGTCC 2 22 1 CAGAAAGAAA 0.84813 -317 GACCAAAGCCATGACAAAAACGCGTAACAAA 2 152 1 ATGAAAAAAC 0.773697 -187 GAAAGCAAAACAGAAAGAAAAAATTAATCAG 3 108 1 CAGAAGAAAA 0.906193 -35 CTGAAAGAAATCGAAATGCAG 4 1 1 CTGAAGAAAT 0.720891 -300 ATGACAAAAGCAGATAAAAAAGTTGTTATTT 4 65 1 CAGAAAAAAA 0.899158 -236 TGATCATGTTATGAAAAAAAATAACAACTTT 4 83 0 ATGAAAAAAA 0.888282 -218 TGCGGCAAAACTGATAAAAAAATCATCGTTT 4 137 0 CTGAAAAAAA 0.937976 -164 AATCTTGCCTCTGAAAAGAACAATCCTTTCG 10 72 1 CTGAAAGAAC 0.802866 -155 TAAGAGGGGAAAGAGAGAAAACACTGTAATC 13 36 0 AAGAAGAAAA 0.8355 -265 ATACGTACTAATGATAGGAAAATAAACCTAT 14 140 0 ATGAAGGAAA 0.843636 -68 TAATTCGCCAATGACACAAAAAATCCTTTTT 15 243 0 ATGAACAAAA 0.709855 -58 **** ****** Masking position 6 Map Score: 2.79439 Number of sites scoring better than the average of aligned sites = 286 Number in coding regions = 209 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 84 Fraction of orfs with sites within 600 bp upstream = 0.0134918 Motif number 15 GCTTTTAATAAGCGGGGTTACCGGTTGGGT 2 105 0 AGCGGGGTTA 0.964824 -234 CGGTAATGATAGCGGGTTAACAGGAGCAAG 6 21 0 AGCGGGTTAA 0.984059 -53 GTTTTCCTCCAGCGGGTTTAACAGGAGTCC 6 50 1 AGCGGGTTTA 0.970662 -24 GACTGATTAATGAGGGTTAATCAGTATGCA 7 235 1 TGAGGGTTAA 0.906411 -66 GGCATATAACAGAGGGTTAATAAC 7 287 1 AGAGGGTTAA 0.97516 -14 GGGAGAAATAAGAGGGGAAAGAGAGAAAAC 13 45 0 AGAGGGGAAA 0.889249 -256 ********** Masking position 10 Map Score: 3.56722 Number of sites scoring better than the average of aligned sites = 85 Number in coding regions = 68 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049