AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -iglpR_ecoli_bsub_300.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 glpT_glpA 272 glpT: sn-glycerol-3-phosphate permease, glpA: sn-glycerol-3-phosphate dehydrogenase (anaerobic), large subunit #2 glpG 44 protein of glp regulon #3 glpE_glpD 189 glpE: protein of glp regulon, glpD: sn-glycerol-3-phosphate dehydrogenase (aerobic) #4 glpK 22 glycerol kinase #5 glpF 300 facilitated diffusion of glycerol #6 glpQ 98 glycerophosphoryl diester phosphodiesterase #7 glpT 296 glycerol-3-phosphate permease #8 yhxA 300 similar to adenosylmethionine-8-amino-7-oxononanoate aminotransferase #9 glpP 27 transcription antiterminator #10 glpF 178 glycerol uptake facilitator #11 glpD 140 glycerol-3-phosphate dehydrogenase #12 mobA 136 molybdopterin-guanine dinucleotide biosynthesis protein A #13 moeB 50 molybdopterin biosynthesis protein #14 yknU 223 similar to ABC transporter (ATP-binding protein) #15 yknW 109 yknW #16 fruR 279 transcriptional regulator (DeoR family) #17 yqhL 190 similar to hypothetical proteins #18 yqgP 89 similar to hypothetical proteins #19 yqgO 66 yqgO #20 yqgN 300 similar to 5-formyltetrahydrofolate cyclo-ligase #21 glcR 223 transcriptional regulator (DeoR family) #22 ywpH 76 similar to single-strand DNA-binding protein #23 ywpG 174 ywpG #24 iolR 300 transcriptional regulator (DeoR family) Motif number 1 GAAGTTCGTTTTTTACCATTTAGCCATAGT 1 23 1 TTTTACCATT 0.782772 -250 CAATTCATGTTTTTACTATGGCTAAATGGT 1 37 0 TTTTACTATG 0.613626 -236 CTCTAAAATGTTTTTTCAATGTTACCTAAA 3 80 0 TTTTTTCAAT 0.657963 -110 TACATCCGTTTTTTATTATGAAAGACAGGT 6 52 1 TTTTATTATG 0.679611 -47 TGCAATTATATTTTTTTACTAGTAACATAA 7 36 0 TTTTTTTACT 0.70251 -261 AAAGGGGATGTTTTATTATTTACGCGGTTT 8 167 1 TTTTATTATT 0.792514 -134 TTTGTTGTGGTTTTTTTATTCTCTTCTTCT 10 119 1 TTTTTTTATT 0.890537 -60 TTGTGGTCTCTTTTTCTATTTACCGTGACA 11 105 1 TTTTTCTATT 0.858979 -36 AAGTTTCATGTTTTTCTAATAAATTTCCAA 15 39 0 TTTTTCTAAT 0.533368 -71 ATGCATGAGGTTTTTTTATGTTTAGTGATT 16 22 1 TTTTTTTATG 0.818776 -258 TATAAAAGACTTTTTTCATTAAAATAAGAA 16 63 1 TTTTTTCATT 0.91112 -217 TCCAATAGTTTTTTTTCATTATAACAGCTG 18 61 0 TTTTTTCATT 0.91112 -29 AACGTAGATTTTTTATCACGTGGGCAATAT 20 178 0 TTTTATCACG 0.436882 -123 GTTCTGGCTTTTTTTCTATTCCGAGGGGGA 20 275 1 TTTTTCTATT 0.858979 -26 ATAATTTCTATTTTTTCATTATACTGTAAC 23 128 1 TTTTTTCATT 0.91112 -47 AAACACTACATTTTTTCATTATTTTTATTA 24 126 1 TTTTTTCATT 0.91112 -175 ********** Masking position 4 Map Score: 13.8482 Number of sites scoring better than the average of aligned sites = 227 Number in coding regions = 161 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 2 CGTTGCTGTCGCTTATTCCACACA 2 31 0 GCTGTCGCTT 0.868931 -14 ATTTTCGATTGATGTGGATTATGTCACCAG 5 58 0 GATGTGGATT 0.747956 -243 ACTCTGACCCGGTCTGGCTTTATATTGAAG 8 201 1 GGTCTGGCTT 0.933154 -100 GTAAAGAGCTGCTGTGGTCTCCGAGTTCTC 10 61 0 GCTGTGGTCT 0.965056 -118 AAAGCGGTTTGTTGTGGTTTTTTTATTCTC 10 112 1 GTTGTGGTTT 0.945164 -67 ACACTTTGGTGCTGTGGTCTCTCCTCATCT 11 57 0 GCTGTGGTCT 0.965056 -84 CACTTTGGCTGTTGTGGTCTCTTTTTCTAT 11 94 1 GTTGTGGTCT 0.915221 -47 TGACAATCACGCTGTGCTTTACTATAATAG 17 93 1 GCTGTGCTTT 0.837383 -98 AATTCAACGCGGTCTGGATTGTTGCGTTTG 20 142 0 GGTCTGGATT 0.825083 -159 CTTTTTCAAAGCTCTGGCTTTTTTCTTACA 20 245 0 GCTCTGGCTT 0.970659 -56 TTTGAAAAAGGTTCTGGCTTTTTTTCTATT 20 265 1 GTTCTGGCTT 0.928221 -36 ********** Masking position 5 Map Score: 8.32852 Number of sites scoring better than the average of aligned sites = 325 Number in coding regions = 302 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 3 GCGTCTCTCTTTCTTTACAAACAAGT 3 174 0 CTCTCTTTTT 0.919271 -16 GATTTCTCCTCCTTATAGATAAGCA 6 84 0 TTCTCCTCTA 0.753362 -15 GGATTCCTGGCTCTCCTCATCTCCATCCAAGC 7 176 0 CTCTCCTCTT 0.966941 -121 TGTTTTCTGGCTCTTTTTGTTTTTCGGGAAAG 7 227 1 CTCTTTTTTT 0.785997 -70 GAAACAGACCTTCTCTTTATGTGATGTCTTGG 8 246 0 TTCTCTTTTT 0.917863 -55 GGTTTTTTTATTCTCTTCTTCTCTATCATGCT 10 127 1 TTCTCTTCTT 0.939169 -52 GTGCTGTGGTCTCTCCTCATCTCAGGACCGTT 11 47 0 CTCTCCTCTT 0.966941 -94 CTGTTGTGGTCTCTTTTTCTATTTACCGTGAC 11 102 1 CTCTTTTTTT 0.785997 -39 CAAACCTGTTCTCCTTATCTTTTATGTCAT 13 31 0 TTCTCCTTTT 0.954077 -20 GTACGACATTTTCTTCTTATTTTAATGAAAAA 16 74 0 TTCTTCTTTT 0.870145 -206 TGTCGTACAATTGTCCTTATTTTTGTCGAATT 16 98 1 TTGTCCTTTT 0.669761 -182 TGTGATTCTACTCCTTTAGCATATAAA 17 174 0 TTCTACTCTT 0.737801 -17 TTAAGCGTTTTTCTTTTCTTGTTGCATCATTT 22 20 1 TTCTTTTCTT 0.832769 -57 ******** * * Masking position 7 Map Score: 9.79756 Number of sites scoring better than the average of aligned sites = 157 Number in coding regions = 118 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 4 GCAACTCAAGAAACGGCAGGTTCTCTCACTG 1 204 1 AAACGCAGGT 0.84 -69 GGCAAACCGTAATCTGCAAGGCGTGCCGC 5 9 0 AATCGCAAGG 0.967211 -292 GTAACATAAAAATCTGGAGGGAGGCTGTTTA 7 14 0 AATCGGAGGG 0.895924 -283 CATCCAGCACAAACAGCAAAGGGGGATAATT 7 272 1 AAACGCAAAG 0.948306 -25 ATCATACAGAAAACGGCTAGGCTTCACATTG 8 25 1 AAACGCTAGG 0.937232 -276 AAACCGGACGGCATTTCAGCC 14 1 1 AAACGGACGG 0.968719 -223 AAATACAGAAAAACCGGACGGCTGAAATGCC 14 20 0 AAACGGACGG 0.968719 -204 GATTCTATTAAAACGGTAAGGAAGGTCTTAA 17 12 0 AAACGTAAGG 0.93227 -179 CTTACACCTCAAACAGCAAAGCTGTTATTTT 20 220 0 AAACGCAAAG 0.948306 -81 ACAATACATACAACCGCAAGGAGAGGAGGAA 22 52 1 CAACGCAAGG 0.956767 -25 **** ****** Masking position 2 Map Score: 6.35653 Number of sites scoring better than the average of aligned sites = 289 Number in coding regions = 266 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 5 CGCGAAATCAAACAATTCATGTTTTTACTATGG 1 46 0 AAAATCTGTT 0.681924 -227 AAAATGACGCATGAAATCACGTTTCACTTTCGA 1 95 0 ATAAACCGTT 0.847095 -178 GTTAAAGCTCATAAATGTTCGTTATCGAACATA 3 30 1 ATAATTCGTT 0.586715 -160 TAGGGAAGTGAATATTATCCTTTTACTAAATGC 7 63 0 AAATTTCTTT 0.371321 -234 GCCCAATTTGAAAATTACCCGTTTACATTCGCT 7 98 1 AAATTCCGTT 0.881717 -199 TTAACTTATCATGATAGCGCTTTCTTAAATTAT 7 141 0 ATATACCTTT 0.498553 -156 AGAGCCAGGAATCCAACCCCTTTTGACAAGGGG 7 194 1 ATCAACCTTT 0.611952 -103 GTAAATAATAAAACATCCCCTTTCTCAAGAAGA 8 157 0 AACATCCTTT 0.867599 -144 GGTCAGAGTCAATAAACCGCGTAAATAATAAAA 8 177 0 AAAAACCGTA 0.507765 -124 GTGCTCCTTTAATAATTCACTTTTATA 9 5 0 AAAATCCTTT 0.927315 -23 AAAAAACCACAACAAACCGCTTTACGGGTGCAT 10 102 0 AAAAACCTTT 0.876811 -77 ACCAAAGTGTAAGCATGCACTTTGGCTGTTGTG 11 77 1 AACATCCTTT 0.867599 -64 TAACTATCAAAATCTTTCACGTTTCTCCATATT 16 160 0 AACTTCCGTT 0.792904 -120 TGTATTCAAAATGAATACGTTTTCATTAGGAGG 16 251 1 ATAATCTTTT 0.339035 -29 TACTGAAAGCAAAAAATCCCGTTTTTCACGGGA 18 13 0 AAAAACCGTT 0.92776 -77 TTGGAGGGAAAATAATGCGCGTTAATATTACTT 20 63 1 AAAATCCGTT 0.958368 -238 CCACGTGATAAAAAATCTACGTTACACCGTGAA 20 185 1 AAAATTCGTT 0.766909 -116 ** *** * **** Masking position 12 Map Score: 7.30804 Number of sites scoring better than the average of aligned sites = 487 Number in coding regions = 395 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 112 Fraction of orfs with sites within 600 bp upstream = 0.0179891 Motif number 6 GCGATGTTAAGAAAACATTCATAAATTAAAT 1 172 0 GAAAACTTCA 0.821142 -101 TATGAAAAGCCTTCAATATTGAAGG 15 5 1 AAAAGCTTCA 0.843476 -105 ATAAATTTCCAAAAACCTTCAATATTGAAGG 15 20 0 AAAAACTTCA 0.922852 -90 TTTAATGAAAAAAGTCTTTTATATTCATAGT 16 55 0 AAAGTCTTTA 0.634218 -225 AATAACTATCAAAATCTTTCACGTTTCTCCA 16 164 0 AAAATCTTCA 0.945982 -116 TTAGGCAACTAAAATCATTCAAATTCATTCA 16 194 0 AAAATCTTCA 0.945981 -86 CCTCCAAACTAAAATCATTTACTTATTCAGA 20 39 0 AAAATCTTTA 0.901909 -262 ATTTTTACTTAAAATCACTTATTAATGTTGA 21 142 1 AAAATCCTTA 0.779423 -82 ACAAGAAAAGAAAAACGCTTAAAAATGGCTT 22 11 0 AAAAACCTTA 0.707077 -66 TTTTTTCCTCGAAAACGTTTATGTTATAATG 23 51 0 GAAAACTTTA 0.707073 -124 TTTCGAGGAAAAAATCCTGCAATGTTGGGGC 23 68 1 AAAATCTGCA 0.76734 -107 ****** **** Masking position 3 Map Score: 3.92689 Number of sites scoring better than the average of aligned sites = 190 Number in coding regions = 147 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 7 TTATTAAATAAGATTTACAAAATGTTCAAAATGACG 1 119 0 ATAAAATGTT 0.938493 -154 CACTTTCGTTAAAGCTCATAAATGTTCGTTATCGAA 3 23 1 ATTAAATGTT 0.906974 -167 TGTTATACATATCACTCTAAAATGTTTTTTCAATGT 3 88 0 ATAAAATGTT 0.934925 -102 CATAATCCACATCAATCGAAAATGTTAATAAATTTG 5 65 1 ATAAAATGTT 0.938359 -236 ATTAGACTGAAATTTTGAAAAATAATAGAAATTTAT 14 149 1 ATAAAATAAT 0.583763 -75 TCGATATAGTGAAGATGATAAATGTTGGAAAGGTGC 14 193 1 GTTAAATGTT 0.908552 -31 AAACTGTCGGGAAAATGGAAAATATTTTAGTTCCAT 17 51 1 GTAAAATATT 0.755828 -140 AGACCGCGTTGAATTTAAAAAATATTGCCCACGTGA 20 157 1 GTAAAATATT 0.755827 -144 AAAAAGCCAGAGCTTTGAAAAAGGTTCTGGCTTTTT 20 252 1 ATAAAAGGTT 0.706318 -49 AAAACTTATAATTACTTATAAATGATTGCTGAGAAA 21 186 1 ATTAAATGAT 0.80226 -38 TTGCGGTTGTATGTATTGTAAATGATGCAACAAGAA 22 35 0 ATTAAATGAT 0.81863 -42 TGAAAAAATAGAAATTATTAAATGTTTCGCTCATAC 23 110 0 GTTAAATGTT 0.908412 -65 TTAATCAATAGTTGCTTAAAAATGATAACATCGGTG 24 218 0 GTAAAATGAT 0.878008 -83 * * ******** Masking position 10 Map Score: 6.22772 Number of sites scoring better than the average of aligned sites = 87 Number in coding regions = 53 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 8 ACGAACTTCAGAGGGATAACA 1 2 0 GAGGGATAAC 0.930794 -271 AAACATTTTAGAGTGATATGTATAACATTA 3 97 1 GAGTGATATG 0.804023 -93 TAATAGCTTGGATGGAGATGAGGAGAGCCA 7 171 1 GATGGAGATG 0.940817 -126 AATACATTGTGATGGAGAACTCGGAGACCA 10 47 1 GATGGAGAAC 0.853364 -132 TTAACATCATGAGGGAGATGGTTCGA 12 7 0 GAGGGAGATG 0.983129 -130 AATAGTACGGGAAGGATATCAAAAAGTTTC 15 62 0 GAAGGATATC 0.85038 -48 CTATTGGCAGGAGGGATATC 19 57 1 GAGGGATATC 0.973502 -10 TTTCTATTCCGAGGGGGATGAGAG 20 287 1 GAGGGGGATG 0.939313 -14 ********** Masking position 8 Map Score: 4.12826 Number of sites scoring better than the average of aligned sites = 109 Number in coding regions = 86 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 9 ATGATTAACAGCCTGATTCAGTGAGAGAAC 1 223 0 GCCTGATTCA 0.833841 -50 GCTGCCCTCATTCACTTTCGTTAA 3 5 1 CCCTCATTCA 0.929989 -185 CTTTAAACAGCCTCCCTCCAGATTTTTAT 7 10 1 GCCTCCCTCC 0.968009 -287 TGTGTGGCGTGCCTCCTTTCCCGAAAAACA 7 244 0 GCCTCCTTTC 0.924369 -53 GTGATGATTTCCCTGCCTTCAATATAAAGC 8 217 0 CCCTGCCTTC 0.873753 -84 AAAATCAAAACCCTGCTTCATAAAACAAGG 17 147 0 CCCTGCTTCA 0.954312 -44 GATATCCCTCCTGCCAATAGGGTTT 19 52 0 CCCTCCTGCC 0.958491 -15 GCCCTCATTCCTTTTCTCAGC 21 213 0 CCCTCATTCC 0.971415 -11 ********** Masking position 4 Map Score: 2.4941 Number of sites scoring better than the average of aligned sites = 178 Number in coding regions = 156 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 10 TCAAAATGACGCATGAAATCACGTTTCACTTTC 1 97 0 GAGAAATCCG 0.963666 -176 GAACATATTAGCAAAGAATCGCGCTTTAGGTAA 3 56 1 GAAGAATCCG 0.904249 -134 ACAATCAGATGGAATAAATGGCGCGATAACGCT 5 134 1 GATAAATGCG 0.961417 -167 TCTGTATGATATAGGAAATGGCGA 8 2 0 AAGAAATGCG 0.871357 -299 AAAACCGGACGGCTGAAATGCCGTCCGGTTT 14 9 0 GCGAAATGCG 0.890965 -215 ATTAAAATAAGAAGAAAATGTCGTACAATTGTC 16 80 1 GAAAAATGCG 0.970101 -200 CCTACTGAAAGCAAAAAATCCCGTTTTTCACGG 18 15 0 GAAAAATCCG 0.956452 -75 ACTTTGGCTTGCACTGAATGTCGTGAGCGTAAC 20 92 1 GATGAATGCG 0.914635 -209 ACGTTTTCGAGGAAAAAATCCTGCAATGTTGGG 23 64 1 GAAAAATCTG 0.657398 -111 AAAAATAAATGGCGGATGCATATT 24 2 1 AATAAATGCG 0.811592 -299 * * ****** ** Masking position 7 Map Score: 4.67184 Number of sites scoring better than the average of aligned sites = 249 Number in coding regions = 225 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 11 ACATGATGCATGTTTGTTAGATCATTCGCGCA 5 102 0 TTTTGTTGAT 0.913578 -199 GAAGAGTTAATGTTTGTTGTATGCGTGAAAGT 5 268 0 TTTTGTTTAT 0.90704 -33 ACAGACCTTCTCTTTATGTGATGTCTTGGTGA 8 243 0 TTTTATGGAT 0.670495 -58 TGTTGTGGTTTTTTTATTCTCTTCTTCTCTAT 10 121 1 TTTTATTTCT 0.65256 -58 CTTCCCGTACTATTTGTTAGATATTCTCAAGG 15 78 1 TTTTGTTGAT 0.913578 -32 TGAAGCAGGGTTTTGATTTTATATGCTAAAGG 17 157 1 TTTGATTTAT 0.794765 -34 TAATTATAAGTTTTTATTTGATTTTATTCAAC 21 168 0 TTTTATTGAT 0.90704 -56 TTTGGTCATTTCTTGGTTATATTCTAATCGCA 24 73 1 TTTGGTTTAT 0.807524 -228 TTTTTCATTATTTTTATTATATTAATCTTTTA 24 137 1 TTTTATTTAT 0.900061 -164 TAACTTTTGGTTTTTATTATATATTTATGTTA 24 251 1 TTTTATTTAT 0.900061 -50 * ****** *** Masking position 7 Map Score: 2.9038 Number of sites scoring better than the average of aligned sites = 61 Number in coding regions = 37 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 12 TATGAGCGAATATGCGCGAAATCAAACAAT 1 63 0 TATGCGCGAA 0.984857 -210 ACTTTCGAATTATGAGCGAATATGCGCGAA 1 73 0 TATGAGCGAA 0.973025 -200 TAATAAATTTGTTGCGCGAATGATCTAACA 5 90 1 GTTGCGCGAA 0.915041 -211 ATGTTTGTTGTATGCGTGAAAGTCACGGAC 5 261 0 TATGCGTGAA 0.939795 -40 AAGAATTTTGTATGAGCGAAACATTTAATA 23 101 1 TATGAGCGAA 0.973025 -74 ********** Masking position 3 Map Score: 1.86228 Number of sites scoring better than the average of aligned sites = 59 Number in coding regions = 53 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 13 CGCTTTATACTGTCCCCTTTTG 2 3 1 CTTTATACTG 0.919296 -42 CCCGGTCTGGCTTTATATTGAAGGCAGGGA 8 208 1 CTTTATATTG 0.810925 -93 ATTGAATTGGCATTATAGGGAACGCTAATG 8 279 1 CATTATAGGG 0.93067 -22 GAGTCTCTTACTTTATAGGGAGTAACATAT 14 111 0 CTTTATAGGG 0.934759 -113 CGTCCATTATAGTGGTATTATATA 20 5 1 CATTATAGTG 0.902055 -296 TCTATTTTTTCATTATACTGTAACTGACTA 23 134 1 CATTATACTG 0.880232 -41 ********** Masking position 5 Map Score: 1.61926 Number of sites scoring better than the average of aligned sites = 23 Number in coding regions = 13 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 14 CATACAGAAAACGGCTAGGCTTCACATTGC 8 27 1 ACGGCTAGGC 0.906073 -274 AAACCGGACGGCATTTCAGCCG 14 3 1 ACCGGACGGC 0.977281 -221 ATACAGAAAAACCGGACGGCTGAAATGCCG 14 19 0 ACCGGACGGC 0.977281 -205 AACAAATAGTACGGGAAGGATATCAAAAAG 15 66 0 ACGGGAAGGA 0.973132 -44 TTCTATTAAAACGGTAAGGAAGGTCTTAAA 17 11 0 ACGGTAAGGA 0.901126 -180 AATACATACAACCGCAAGGAGAGGAGGAAT 22 54 1 ACCGCAAGGA 0.961281 -23 ********** Masking position 1 Map Score: 1.29673 Number of sites scoring better than the average of aligned sites = 123 Number in coding regions = 117 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 15 TGATTCAGTGAGAGAACCTGCCGTTTCTTG 1 210 0 AGAGAACCTG 0.833561 -63 ATGGAGATGAGGAGAGCCAGGAATCCAACC 7 182 1 GGAGAGCCAG 0.975895 -115 CGAAAAACAAAAAGAGCCAGAAAACACCCC 7 223 0 AAAGAGCCAG 0.978296 -74 TAGGCGTTTCGGAGCGCCAGCTGTTATAAT 18 44 1 GGAGCGCCAG 0.914917 -46 AGGTGTAAGAAAAAAGCCAGAGCTTTGAAA 20 242 1 AAAAAGCCAG 0.91158 -59 CGGAATAGAAAAAAAGCCAGAACCTTTTTC 20 268 0 AAAAAGCCAG 0.91158 -33 AGGCAAAAAGAAAGAACCAGTCTGGTCGAC 21 84 0 AAAGAACCAG 0.946292 -140 AAATGCGTCGAGAGAACCAATTTTTCCTAA 21 116 0 AGAGAACCAA 0.757328 -108 ********** Masking position 3 Map Score: 4.11178 Number of sites scoring better than the average of aligned sites = 306 Number in coding regions = 284 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789