AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00710_ecoli_reg_100.orf -o00710_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 aspC 184 aspartate aminotransferase #2 pykF 300 pyruvate kinase I (formerly F), fructose stimulated #3 pykA 127 pyruvate kinase II, glucose stimulated #4 talA 288 transaldolase A #5 rpiA 55 ribosephosphate isomerase, constitutive #6 yqfE 141 orf, hypothetical protein #7 fba 214 fructose-bisphosphate aldolase, class II #8 pgk 49 phosphoglycerate kinase #9 epd 284 D-erythrose 4-phosphate dehydrogenase #10 tktA 151 transketolase 1 isozyme #11 mdh 300 malate dehydrogenase #12 yheS 127 putative ATP-binding component of a transport system #13 prkB 53 probable phosphoribulokinase #14 dam 106 DNA adenine methylase #15 pckA 300 phosphoenolpyruvate carboxykinase #16 tpiA 107 triosephosphate isomerase #17 ppc 249 phosphoenolpyruvate carboxylase #18 rpiB 300 ribose 5-phosphate isomerase B #19 fbp 175 fructose-bisphosphatase Motif number 1 TTTCTGGGCGCACTGCCGGAAAGCGAATCCG 2 237 0 CCTGCCGGAA 0.896001 -64 GCGCCACGTTGTGGGCAGGGGCTGTTGCCCA 4 51 0 GGGGCAGGGG 0.765484 -238 CACATTATTACCCTGCCGGAGTCTACAGACT 4 81 1 CCTGCCGGAG 0.982093 -208 AAAATCACAGGGCAGGGAAACCTGCCCT 7 8 1 CGGGCAGGGA 0.865018 -207 GGTGAGCGAACGCAGACGCAGCACATGCAAC 7 149 1 CCAGACGCAG 0.610132 -66 TCAGGGAAAACCTTGCAGGAGATCT 9 270 1 CTTGCAGGAG 0.937246 -15 AATTTGCATGCCGTGACGCAGGCATG 11 6 0 CGTGACGCAG 0.849023 -295 GGATTAAGGTCGCGGCAGCGGAGCAACATAT 11 249 1 CCGGCAGCGG 0.950798 -52 AAAAACCATACCGGGAGGGGG 12 1 0 CGGGAGGGGG 0.907252 -127 CCATTGCGCCCGGTGCGGCAGCTCGCCCATA 12 56 1 CGTGCGGCAG 0.946196 -72 AACGATAAACCATTGCGGGAGATAACCTTGA 14 11 0 CTTGCGGGAG 0.941796 -96 AATGGTTTATCGTTGCGGGAGTTGCCTGAAG 14 28 1 CTTGCGGGAG 0.941796 -79 GAGCTTTCTCCACAGCCGGAGAAGGTGTAAT 14 74 1 CCAGCCGGAG 0.939643 -33 GGCCGCCCCGCAGGGCAGCAGGTCTGTGAAA 16 50 0 CGGGCAGCAG 0.951755 -58 TGAAGTTTTGCACGGACGGGGAAGATGA 18 283 1 CCGGACGGGG 0.93527 -18 ACTCCATAAACATTGCAGGGAAAGTTTT 19 158 1 CTTGCAGGGA 0.692331 -18 * ********* Masking position 5 Map Score: 16.4907 Number of sites scoring better than the average of aligned sites = 2090 Number in coding regions = 1977 Number in noncoding regions = 113 Number of orfs with sites within 600 bp upstream = 112 Fraction of orfs with sites within 600 bp upstream = 0.0179891 Motif number 2 TCACGTCTTGCAAAAACAGCCTGCGTTTTCA 1 84 1 CAAAACAGCC 0.883548 -101 AAAAGGAAAACAAAAACAGCGTTTCAAAAAA 2 23 0 CAAAACAGCG 0.98322 -278 GCATTATATACAAAAAAAGCGAT 5 3 0 CAAAAAAGCG 0.920242 -53 ATTGCGTGCTCTAAAAGCGCGCTGAAACAAG 7 37 0 CAAAAGCGCG 0.904812 -178 GACGCAAGCAGCGTCTGCAAAAC 8 3 1 CCAAGCAGCG 0.978324 -47 CCTTACCTGTCGCAAACTGCGACTGATTGGT 9 195 0 CCAAACTGCG 0.964062 -90 AACAATTTACCGCAAGCCGCGCGTCATGTAC 10 49 0 CCAAGCCGCG 0.977896 -103 TCCGGCGTAGCCCAAAACGCGCTGTCGTCAA 10 89 1 CCAAAACGCG 0.92454 -63 CAATGGTAGCCCAAAACAGCGACTATACACA 12 31 0 CAAAACAGCG 0.98322 -97 GCGGTGACGTCAAATGCTGCGAAATCGCTTC 17 117 0 CAATGCTGCG 0.718603 -133 * ********* Masking position 4 Map Score: 11.1905 Number of sites scoring better than the average of aligned sites = 342 Number in coding regions = 321 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 3 GAAACAACCAGGTGTTGCTTGAACATGAAAT 3 90 0 GGTGTTCTTG 0.974953 -38 CTATAACACTGATGTTACCTGCTTAATCCAG 4 161 1 GATGTTCCTG 0.974951 -128 TGCTGTTGTCTGCTCCTGGTAA 6 2 1 GCTGTTTCTG 0.852555 -140 CCTGGTAAATGCTTTTTCCTGCACTATGACA 6 25 1 GCTTTTCCTG 0.852555 -117 TCTCCTGCAAGGTTTTCCCTGAGCAAATTTG 9 261 0 GGTTTTCCTG 0.931987 -24 GCGGCAAAAGGATGTTCCATGTACATGACGC 10 29 1 GATGTTCATG 0.913929 -123 CTTTTAAGCAGAATTTGCATGCCGTGACGCA 11 17 0 GAATTTCATG 0.454562 -284 TATCGTTGCGGGAGTTGCCTGAAGCGCTGGA 14 35 1 GGAGTTCCTG 0.956652 -72 CAGGAATCACGGAGTTTTTTGTCAAATATGA 15 182 1 GGAGTTTTTG 0.753391 -119 CACCTTTGGTGTTACTTGGGGCGATTTT 17 8 1 GGTGTTCTTG 0.974952 -242 TTAAAAACATGATGTTATTTGTTTTTCTGGT 18 106 1 GATGTTTTTG 0.843464 -195 TTAGATGATAGATGTTGCTGGATGGTGAGTG 18 140 1 GATGTTCTGG 0.807331 -161 ****** **** Masking position 6 Map Score: 10.3738 Number of sites scoring better than the average of aligned sites = 470 Number in coding regions = 426 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 4 TACAGAAGGGAAGTCCGCTATCAGGGTAAC 1 146 0 AAGTCCGCTA 0.670811 -39 TCAGCGTATAATGCGCGCCAATTGACTCTT 2 63 1 ATGCGCGCCA 0.98432 -238 CAGGGTAATAATGTGCGCCACGTTGTGGGC 4 66 0 ATGTGCGCCA 0.94697 -223 AAGATCAGGGATTTGCGCTA 6 132 1 ATTTGCGCTA 0.85548 -10 CGTGCTCTAAAAGCGCGCTGAAACAAGGGC 7 34 0 AAGCGCGCTG 0.894485 -181 GCGTAGCCCAAAACGCGCTGTCGTCAAGTC 10 93 1 AAACGCGCTG 0.689577 -59 CACTCACAATATTCCCGCCATATAAACCAA 15 82 1 ATTCCCGCCA 0.929306 -219 AATGTTAAAAAATCGCCCCAAGTAACACCA 17 17 0 AATCGCCCCA 0.864234 -233 GCCCGAGCATATTCGCGCCAATGCGACGTG 17 184 1 ATTCGCGCCA 0.980062 -66 CGCTCAGGTGAATCGCGCCAGCAAATTACG 19 88 0 AATCGCGCCA 0.980032 -88 ********** Masking position 1 Map Score: 8.70122 Number of sites scoring better than the average of aligned sites = 1277 Number in coding regions = 1214 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 5 TGAGATTGCTCTGGAAGGTATAAAAAAAACA 1 56 0 CGGAAGGTAT 0.812024 -129 GGGCGCACTGCCGGAAAGCGAATCCGGTATT 2 232 0 CGGAAAGCGA 0.963621 -69 GAAATAACGCCGCGATGGCGATAAATTAATC 3 53 0 CCGATGGCGA 0.862205 -75 AAAAGCATAGCAGACAGGCATGGTATTGCTG 4 189 0 CGACAGGCAT 0.627247 -100 ATTCGAGTTGCAGGAAGGCGACAAGAGAGTG 7 85 1 CGGAAGGCGA 0.992621 -130 AGCTTTATTCCAGGCTGGCGTAATAATAACC 9 33 0 CGGCTGGCGT 0.9658 -252 CAATTTCATTCAGGAATGCGATTCCACTCAC 15 58 1 CGGAATGCGA 0.963621 -243 ATAGATGTTGCTGGATGGTGAGTGTCTTTAA 18 147 1 CGGATGGTGA 0.929933 -154 TAAAACAGATCAGGAAGGCGTAATTCATCGA 18 206 1 CGGAAGGCGT 0.991243 -95 ACGCATATGTCGGGCAAGTGAGAAACGCATT 19 46 1 CGGCAAGTGA 0.804285 -130 ACGGATTATCCTGAAATGCGTTTCTCACTTG 19 60 0 CGAAATGCGT 0.774472 -116 * ********* Masking position 1 Map Score: 8.49232 Number of sites scoring better than the average of aligned sites = 1900 Number in coding regions = 1813 Number in noncoding regions = 87 Number of orfs with sites within 600 bp upstream = 95 Fraction of orfs with sites within 600 bp upstream = 0.0152586 Motif number 6 CATCGAAAAAGCGTGCAGAGGAATGTGTGC 2 166 0 GCGTGCAGAG 0.88343 -135 TTCCGGCAGTGCGCCCAGAAAGCAAGTTTC 2 247 1 GCGCCCAGAA 0.95944 -54 TGCTCTAAAAGCGCGCTGAAACAAGGGCAG 7 32 0 GCGCGCTGAA 0.974325 -183 CTCCGCTGCCGCGACCTTAATCCACAAAAT 11 242 0 GCGACCTTAA 0.732589 -59 AAAAAAGTTAGCGTGGTGAATCGATACTTT 15 11 1 GCGTGGTGAA 0.97862 -290 TCGCTTATAAGCGTGGAGAATTAAA 16 93 1 GCGTGGAGAA 0.966139 -15 CTTATTTAAAGCGTCGTGAATTTAATGACG 17 60 1 GCGTCGTGAA 0.97862 -190 TCGCGCCAATGCGACGTGAAGGATACAGGG 17 196 1 GCGACGTGAA 0.960835 -54 ********** Masking position 9 Map Score: 6.36404 Number of sites scoring better than the average of aligned sites = 456 Number in coding regions = 427 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 7 GCTGTTTTTGTTTTCCTTTTGGATTAATTT 2 34 1 TTTTCCTTTT 0.792883 -267 TGCCTGTCTGCTATGCTTTTTTGATGCGTT 4 200 1 CTATGCTTTT 0.915491 -89 TCATCTAACACTTTACTTTTCAAGGAGTAT 4 264 1 CTTTACTTTT 0.956143 -25 GCTGGACAAACATTCCTTTTATTCCACGTT 9 116 1 CATTCCTTTT 0.843852 -169 ATAACAATTAATTTACTTTTAAGCAGAATT 11 33 0 ATTTACTTTT 0.708843 -268 CCCAAAAAGACTTTACTATTCAGGCAATAC 15 259 1 CTTTACTATT 0.774614 -42 GGCACAAAGGCTTTGCTTTTTG 16 3 0 CTTTGCTTTT 0.971656 -105 TATGCTCGGGCTTTGCTTTTCGTCGTCTTT 17 165 0 CTTTGCTTTT 0.971656 -85 ACGTCACTATCCTTTTTTAATCTGCC 19 7 1 CTATCCTTTT 0.915491 -169 ********** Masking position 4 Map Score: 5.60325 Number of sites scoring better than the average of aligned sites = 81 Number in coding regions = 52 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 8 TGCGCCACGTTGTGGGCAGGGGCTGTTGCCCAC 4 50 0 TGTGGAGGGC 0.658572 -239 TTCACACTTCTGAGAAATTTCGCTAAACGCATC 4 222 0 TGAGATTCGC 0.955025 -67 TTCTCAGAAGTGTGAATTAACGCACTCATCTAA 4 239 1 TGTGATACGC 0.902322 -50 GACACAAAATTGTGTCATAGTGCAGGAAAAAGC 6 35 0 TGTGCTGTGC 0.806776 -107 GACACAATTTTGTGTCAGGTTGCATATACCGAA 6 52 1 TGTGCGTTGC 0.687187 -90 TTATTTAGAGTATGAAAAATTGCGTGCTCTAAA 7 53 0 TATGAATTGC 0.6375 -162 AGGTTTTCCCTGAGCAAATTTGCCAGACAGAGT 9 250 0 TGAGAATTGC 0.894047 -35 AACAGTCGCTTATGCATTAGCGCAACATTCCAA 11 112 0 TATGATGCGC 0.690798 -189 ATCTCAAGAATGTGTAGTCACGCAAGTTTAGCG 11 190 0 TGTGATACGC 0.902322 -111 GTATGGTTTTTGTGTATAGTCGCTGTTTTGGGC 12 21 1 TGTGAATCGC 0.97632 -107 GGGAATATTGTGAGTGGAATCGCATTCCTGAAT 15 65 0 TGAGGATCGC 0.880374 -236 CGTAAATCTATGAGCCTTGTCGCGGTTAACACC 15 226 1 TGAGCTTCGC 0.914674 -75 AAGCAAAGCCCGAGCATATTCGCGCCAATGCGA 17 177 1 CGAGAATCGC 0.742343 -73 TTTATTTTATTGTGAACAATGGCGAGTGGCTTA 18 50 1 TGTGAATGGC 0.916839 -251 GTTTTTTGATTGTGAAGTTTTGCACGGACGGGG 18 271 1 TGTGATTTGC 0.942475 -30 **** * * **** Masking position 4 Map Score: 8.02846 Number of sites scoring better than the average of aligned sites = 544 Number in coding regions = 484 Number in noncoding regions = 60 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 9 ACAGGCACTCACGTTGGGCTGAGACACAAGCA 2 137 1 AGTTGGGCTA 0.952534 -164 CCTGCCCACAACGTGGCGCACATTATTACCCT 4 63 1 AGTGGCGCAA 0.910314 -226 CACTTCTGAGAAATTTCGCTAAACGCATCAAA 4 219 0 AATTTCGCTA 0.849488 -70 TTGATTCTAAAAGTTTTGCAGACGCTGCTTGC 8 14 0 AGTTTTGCAA 0.70588 -36 CTTTTATTCCACGTTTCGCTTATCCTAGCTGA 9 131 1 AGTTTCGCTA 0.980598 -154 ACCTGTTGGAATGTTGCGCTAATGCATAAGCG 11 107 1 AGTTGCGCTA 0.990511 -194 ACATTTCCATAAGTTACGCTTATTTAAAGCGT 17 42 1 AGTTACGCTA 0.952388 -208 AATAATCTCAATGTTGCGCTCAGGTGAATCGC 19 102 0 AGTTGCGCTA 0.990511 -74 * ******** * Masking position 1 Map Score: 4.34904 Number of sites scoring better than the average of aligned sites = 144 Number in coding regions = 128 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 10 TCAAGAGTCAATTGGCGCGCATTATACGCT 2 65 0 ATTGGCGCGC 0.954372 -236 AACTTGCTTTCTGGGCGCACTGCCGGAAAG 2 245 0 CTGGGCGCAC 0.971457 -56 CTGCCCACAACGTGGCGCACATTATTACCC 4 64 1 CGTGGCGCAC 0.906558 -225 GGAAACCTTACCTGTCGCAAACTGCGACTG 9 201 0 CCTGTCGCAA 0.68664 -84 TCGCTTATGCATTAGCGCAACATTCCAACA 11 110 0 ATTAGCGCAA 0.719724 -191 AGCTGCCGCACCGGGCGCAATGGTAGCCCA 12 49 0 CCGGGCGCAA 0.962952 -79 AATGTAATGTATGGGCGAGCTGCCGCACCG 12 66 0 ATGGGCGAGC 0.606481 -62 TTTGGTGTTACTTGGGGCGATTTTTTAACA 17 15 1 CTTGGGGCGA 0.859574 -235 TTCACGTCGCATTGGCGCGAATATGCTCGG 17 186 0 ATTGGCGCGA 0.957207 -64 TCCGTAATTTGCTGGCGCGATTCACCTGAG 19 86 1 GCTGGCGCGA 0.877646 -90 CGCGATTCACCTGAGCGCAACATTGAGATT 19 101 1 CTGAGCGCAA 0.849097 -75 ********** Masking position 7 Map Score: 4.94333 Number of sites scoring better than the average of aligned sites = 2414 Number in coding regions = 2322 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 104 Fraction of orfs with sites within 600 bp upstream = 0.0167041 Motif number 11 TTAAATGCCGAAAAAACAGGACTTTGGTCC 1 26 1 AAAAAACAGG 0.955746 -159 GAAGGTATAAAAAAAACAGGACCAAAGTCC 1 44 0 AAAAAACAGG 0.955746 -141 ATTACTGATGAAAACGCAGGCTGTTTTTGC 1 93 0 AAAACGCAGG 0.923001 -92 CTCAACGACTCAAAAACAGGCACTCACGTT 2 122 1 CAAAAACAGG 0.913469 -179 GCGCAGCTTAAAAGATCAGGGATTTGCGCT 6 121 1 AAAGATCAGG 0.808882 -21 AAAATCACAGGGCAGGGAAAC 7 2 1 AAATCACAGG 0.946848 -213 AATAACCCTACAATAACTGGAATAAATTG 9 10 0 CAATAACTGG 0.769369 -275 GCCGCTTCAGAAATCTCTGGATC 10 4 0 AAATCTCTGG 0.710051 -148 GCAAACGAATAAATAGCAGGAATTTACGTC 17 86 0 AAATAGCAGG 0.93562 -164 ********** Masking position 3 Map Score: 4.00879 Number of sites scoring better than the average of aligned sites = 259 Number in coding regions = 204 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 68 Fraction of orfs with sites within 600 bp upstream = 0.0109219 Motif number 12 GGATAGGTGACATCGAAAAAGCGTGCAGAGGAAT 2 172 0 CCGAAAGCGT 0.97465 -129 CCATCCTTCTCAACTTAAAGACTAAGACTGTC 2 279 1 CCTAAAACTA 0.498437 -22 TCGCTAAACGCATCAAAAAAGCATAGCAGACAGG 4 202 0 CCAAAAGCAT 0.822068 -87 GTTGTCTGCTCCTGGTAAATGCTTTTTCCTGCAC 6 15 1 CGGAAAGCTT 0.825299 -127 AACATTTAATCGACTGAAACGCTTCAGCTAGGAT 9 152 0 CCTAAAGCTT 0.963835 -133 CGGCAATTAAATGCATAAACGCTAAACTTGCGTG 11 171 1 ACAAAAGCTA 0.550399 -130 ACATTTTCCACACCTAAAATGCTATTTCTGCGAT 15 129 1 CCTAAAGCTA 0.895357 -172 CGGTTAACACCCCCAAAAAGACTTTACTATTCAG 15 248 1 CCAAAAACTT 0.792254 -53 AGAGATTCATCGGCACAAAGGCTTTGCTTTTTG 16 10 0 CCAAAAGCTT 0.970444 -98 ACGTCAAATGCTGCGAAATCGCTTCAGCAAACGA 17 108 0 CCGAATGCTT 0.907615 -142 TTTTATAAAGCCACGTAAAAGCGGTGACGTCAAA 17 134 0 CCGAAAGCGG 0.878559 -116 TTACATCTGACAGCGCAATAGCGTTAAAGACACT 18 167 0 CCGAATGCGT 0.878266 -134 AATTCATTAACATCACAAATGTTTTTTGATTGTG 18 251 1 CCAAAAGTTT 0.666524 -50 ATTACGGATTATCCTGAAATGCGTTTCTCACTTG 19 60 0 ACTAAAGCGT 0.694464 -116 * ** *** **** Masking position 7 Map Score: 6.31706 Number of sites scoring better than the average of aligned sites = 694 Number in coding regions = 571 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 13 TCTGTAGACTCCGGCAGGGTAATAATGTGCGC 4 78 0 CCGGAGGTAA 0.922558 -211 GCATAGCAGACAGGCATGGTATTGCTGGATTA 4 184 0 CAGGAGGTAT 0.973068 -105 GCGCTGAAACAAGGGCAGGTTTCCCTGCCCTG 7 18 0 AAGGCGGTTT 0.656003 -197 CAGTTTGCGACAGGTAAGGTTTCCCCGGACGA 9 207 1 CAGGAGGTTT 0.981446 -78 AGATCTCCTGCAAGGTTTTCCCTGAGCA 9 267 0 CCTGAGGTTT 0.915463 -18 TTTTGGCTGAACGGTAGGGTATATTGTCACCA 11 76 1 ACGGAGGTAT 0.936044 -225 CCCCCTCCCGGTATGGTTTTTGTGTATAG 12 8 1 CCGGAGGTTT 0.991997 -120 AGGTTATCTCCCGCAATGGTTTATCGTTGCGG 14 14 1 CCGCAGGTTT 0.941349 -93 GCAAATTCAACCGGTAAAGTATCGATTCACCA 15 24 0 CCGGAAGTAT 0.936044 -277 ATAAACATTGCAGGGAAAGTTTT 19 163 1 CAGGAAGTTT 0.901421 -13 **** * ***** Masking position 10 Map Score: 9.22771 Number of sites scoring better than the average of aligned sites = 365 Number in coding regions = 327 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 14 AGACACAAGCACACATTCCTCTGCACGCTT 2 158 1 ACACATTCCT 0.849831 -143 AATACCGGATTCGCTTTCCGGCAGTGCGCC 2 232 1 TCGCTTTCCG 0.91925 -69 AAACGACTGTCACTGTCCTAATCTTATAC 3 10 1 TCACTGTCCT 0.868192 -118 CACTCATCTAACACTTTACTTTTCAAGGAG 4 261 1 ACACTTTACT 0.719227 -28 CACTCTCTTGTCGCCTTCCTGCAACTCGAA 7 86 0 TCGCCTTCCT 0.970402 -129 GTGAGTGGAATCGCATTCCTGAATGAAATT 15 59 0 TCGCATTCCT 0.954947 -242 TCGATGAATTACGCCTTCCTGATCTGTTTT 18 207 0 ACGCCTTCCT 0.94505 -94 ACGTCACTATCCTTTTTTAATCT 19 4 1 TCACTATCCT 0.816317 -172 ATTGTTGCGGTCGCTTTACTCCATAAACAT 19 141 1 TCGCTTTACT 0.905609 -35 ********** Masking position 7 Map Score: 5.11216 Number of sites scoring better than the average of aligned sites = 219 Number in coding regions = 185 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 15 GACTTCCCTTCTGTAACCATAATGGAACCT 1 161 1 CTGTAACCAT 0.718413 -24 GTCCAAAGTGCTGAAACCATTCAAGAGTCA 2 85 0 CTGAAACCAT 0.92475 -216 GTTGCATATACCGAAGCCGTCGGCGGGTAA 6 70 1 CCGAAGCCGT 0.934435 -72 CTTATCCTAGCTGAAGCGTTTCAGTCGATT 9 149 1 CTGAAGCGTT 0.900892 -136 CCAGAGATTTCTGAAGCGGCAAAAGGATGT 10 14 1 CTGAAGCGGC 0.894047 -138 CCTGCAACCGTCGGCGGACGA 13 2 1 CTGCAACCGT 0.893658 -52 CAGGCAACTCCCGCAACGATAAACCATTGC 14 26 0 CCGCAACGAT 0.808186 -81 CGGGAGTTGCCTGAAGCGCTGGATGCTGTC 14 43 1 CTGAAGCGCT 0.930904 -64 TATTCGTTTGCTGAAGCGATTTCGCAGCAT 17 105 1 CTGAAGCGAT 0.967645 -145 ********** Masking position 5 Map Score: 2.57092 Number of sites scoring better than the average of aligned sites = 350 Number in coding regions = 326 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542