AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00750_ecoli_reg_100.orf -o00750_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 thrL 189 thr operon leader peptide #2 thrA 81 aspartokinase I, homoserine dehydrogenase I #3 serC 198 3-phosphoserine aminotransferase #4 rspA 205 starvation sensing protein #5 pdxY 58 pyridoxal kinase 2 / pyridoxine kinase #6 tyrS 128 tyrosine tRNA synthetase #7 pdxH 58 pyridoxinephosphate oxidase #8 ydhA 178 orf, hypothetical protein #9 gatD 47 galactitol-1-phosphate dehydrogenase #10 gatB 30 galactitol-specific enzyme IIB of phosphotransferase system #11 gatZ 28 putative tagatose 6-phosphate kinase 1 #12 gatY 197 tagatose-bisphosphate aldolase 1 #13 ubiX 94 3-octaprenyl-4-hydroxybenzoate carboxy-lyase #14 purF 36 amidophosphoribosyltransferase = PRPP amidotransferase #15 cvpA 165 membrane protein required for colicin V production #16 pdxB 98 erythronate-4-phosphate dehyrogenase #17 pdxK 104 pyridoxal/pyridoxine/pyridoxamine kinase #18 rfe 239 UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase; synthesis of enterobacterial common antigen (ECA) #19 aceB 268 malate synthase A #20 aceA 29 isocitrate lyase #21 BIME206 22 BIME #22 aceK 27 isocitrate dehydrogenase kinase/phosphatase Motif number 1 CAGGAAACACAGAAAAAAGCCCGCACCTGAC 2 17 1 AAAAAAAGCC 0.982877 -65 CTTTGGTCGAAAAAAAAAGCCCGCACTGTCA 2 44 0 AAAAAAAGCC 0.982877 -38 TCGGATTATTAGCAAAAAGCCGATGTTTTTA 3 14 0 ACAAAAAGCC 0.94774 -185 GGAGTGATCACAAAAAAAGGCGTATATTTGC 4 99 0 CAAAAAAGGC 0.947037 -107 GTATAAAGATCGAAAAAAGCCGGAGTGATCA 4 120 0 CAAAAAAGCC 0.963525 -86 CTCTGTAACAATAAAAAGGACTATTT 10 15 1 AAAAAAGGAC 0.866782 -16 AGTGAAAGGCAAAAAAACGGCCTCCCGATAG 12 77 0 AAAAAACGGC 0.978266 -121 GATAACGATCACAAAAACGACAATATGAAAA 12 118 0 AAAAAACGAC 0.96596 -80 TTGAAATCGAAAACAAACGACAGGAT 12 182 1 AACAAACGAC 0.805428 -16 TGGCTTAACGAGGAAAAAGACGT 14 24 1 AGAAAAAGAC 0.80789 -13 CCGCGCATCAATAAAAATGGCGCTGAAAAAA 15 60 0 AAAAAATGGC 0.874422 -106 TTGTCTTATGCCAAAAACGCCACGTGTTTAC 18 13 1 CAAAAACGCC 0.968355 -227 CAGATATAAAAGCAAAACGCCACGTAAACAC 18 36 0 ACAAAACGCC 0.954561 -204 CGTTTCGGAAATAAAAAAGGCACCCGAAGGT 19 59 0 AAAAAAAGGC 0.974909 -210 * ********* Masking position 6 Map Score: 21.8203 Number of sites scoring better than the average of aligned sites = 440 Number in coding regions = 289 Number in noncoding regions = 151 Number of orfs with sites within 600 bp upstream = 134 Fraction of orfs with sites within 600 bp upstream = 0.0215226 Motif number 2 TTCATTCTGACTGCAACGGGCAATATGTCTCTG 1 16 1 CTCCGGGCAA 0.856139 -174 TTTAATTTACTCACGGCAGGTAACCAGTTCAGA 1 82 0 TCCCAGGTAA 0.829553 -108 CGCGTACAGGAAACACAGAAAAA 2 1 1 CGGCAGGAAA 0.958672 -81 CTTTTTTTTTCGACCAAAGGTAACGAGGTAACA 2 56 1 CGCAAGGTAA 0.81037 -26 CAATCGATTGCGACCACAGGTAATACATTATTC 3 139 0 CGCCAGGTAA 0.978654 -60 TATGTCTCTTTCGCATCTGGCGAAAAGTCGTGT 6 67 1 TCCCTGGCGA 0.515506 -62 GGCGAAAAGTCGTGTACCGGCAAAGGTGCAGTC 6 85 1 CGGCCGGCAA 0.949349 -44 CTATTGTGCGCCGCCCCTGGAAAAATC 7 5 0 CCCCTGGAAA 0.932837 -54 GTATTGCCCTCCAGACCAGGAAAGTCTTCGGGA 8 74 1 CCGCAGGAAA 0.963535 -105 ATTAAAGGCGCTACAGCCGGAGAGAAGGACCGG 8 141 0 CTCCCGGAGA 0.73557 -38 GGGATAACCTCCCCCTCAGGTAAAAA 9 4 0 CCCCAGGTAA 0.981205 -44 TATGTTTACACCGCATCCGGCATAAAAACACGC 12 25 1 CCCCCGGCAT 0.890046 -173 TATGCCTTTGCGGCATCGGGCAATGCGT 15 6 0 CGCCGGGCAA 0.967972 -160 TTTATTGATGCGCGGGAAGGAAATCCCTACGCA 15 76 1 CGGAAGGAAA 0.683755 -90 GCCATAATCTCGCGGCCAGGCATACTTGCGAAG 16 33 0 CGGCAGGCAT 0.857008 -66 CCGAAACGTACCTCAGCAGGTGAATAAATTTTA 19 82 1 CCCCAGGTGA 0.964056 -187 TTAGCGCCCTCATCAGGAGCAGAGAAT 22 8 0 CCCCAGGAGC 0.812204 -20 ** * ******* Masking position 9 Map Score: 16.6816 Number of sites scoring better than the average of aligned sites = 2218 Number in coding regions = 1891 Number in noncoding regions = 327 Number of orfs with sites within 600 bp upstream = 208 Fraction of orfs with sites within 600 bp upstream = 0.0334083 Motif number 3 AAAAGAATCTCTCGGATTATTAGCAAAAAGCCGATG 3 20 0 CGATTTGCAA 0.922106 -179 ATCGATTGACCGCGGGTTAATAGCAACGCAACGTGG 3 164 1 CGGTTTGCAA 0.969915 -35 TGTCGTGATGCATGAAATCTACGCAACTGAGCTACT 4 160 0 CGAATAGCAA 0.939755 -46 TGCATCACGACAAGCGATGCAAGGAATCGAAC 4 184 1 CGGATAGGAA 0.961154 -22 ATCAGGAGTACCAGCGATTAAAGCAAGATTTTTGCA 6 16 0 CGGATAGCAA 0.976989 -113 ATCGCTGGTACTCCTGATTCTGGCACTTTATTCTAT 6 34 1 CCGATTGCAC 0.923549 -95 TATCCTTATACCTGAAATCTTCGCAAGTATGCCTGG 16 15 1 CGAATTGCAA 0.967466 -84 TATGCCTGGCCGCGAGATTATGGCACACTTGTCCGG 16 42 1 CGGATTGCAC 0.980655 -57 CTGTATGAGACGAGAGTTAACCGGACAAGTGTGCCA 16 62 0 CGGTTCGGAC 0.869508 -37 TAATGCCGCGCTGGCGATGTTAGGAAAATTCCTGGA 18 73 1 CGGATTGGAA 0.979238 -167 CATAACATGCCAGCAAATTCCAGGAATTTTCCTAAC 18 91 0 CCAATCGGAA 0.700463 -149 * * *** * **** Masking position 15 Map Score: 8.89949 Number of sites scoring better than the average of aligned sites = 235 Number in coding regions = 216 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 4 AATTTTTATCTGTCTGTGCGCTATGCCTAT 1 152 0 TGTCTGTGCG 0.836857 -38 AGCCCGCACCTGACAGTGCGGGCTTTTTTT 2 34 1 TGACAGTGCG 0.986275 -48 CGCAATCGATTGACCGCGGGTTAATAGCAA 3 160 1 TGACCGCGGG 0.90405 -39 TGTCAACCATTCACAGCGCAAATATACGCC 4 82 1 TCACAGCGCA 0.896511 -124 CTTTACGGATTGTCAGTGGGTGACGCTATT 7 33 0 TGTCAGTGGG 0.956571 -26 CTTTTTATTGTTACAGAGGGAT 10 3 0 TTACAGAGGG 0.771776 -28 CCTGCAAGTCTGACAGGGCAACTATTT 13 78 1 TGACAGGGCA 0.943797 -17 TTAAGCCACATCTCAGAGCAC 14 2 0 TCTCAGAGCA 0.717188 -35 CCGAACAGGATGACAGGGCGTAAAATCGTG 15 138 1 TGACAGGGCG 0.98349 -28 GATCCTTCGTTCACAGTGGGGAAGTTTTCG 19 226 1 TCACAGTGGG 0.961639 -43 ********** Masking position 1 Map Score: 7.41071 Number of sites scoring better than the average of aligned sites = 598 Number in coding regions = 553 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 5 TTAGTGACCTAAGTCAATAAAATTTTAATT 1 108 0 AAGTCAATAA 0.745574 -82 TTATTGACTTAGGTCACTAAATACTTTAAC 1 118 1 AGGTCACTAA 0.773356 -72 AAAACCGTTGAGGGCAAAAATGTGGCTTGC 3 63 0 AGGGCAAAAA 0.959385 -136 CCTGGTCTGGAGGGCAATACGCCCTCCCTA 8 64 0 AGGGCAATAC 0.896323 -115 CAGCTGATTAAAGGCGCTACAGCCGGAGAG 8 150 0 AAGGCGCTAC 0.747976 -29 CTGATTGTTAAGGGGGATAACCTCCCCCTC 9 20 0 AGGGGGATAA 0.869195 -28 GCCATTTAACAAGGAAAAAAC 11 18 1 AAGGAAAAAA 0.661867 -11 CGAGGAGTGAAAGGCAAAAAAACGGCCTCC 12 83 0 AAGGCAAAAA 0.927037 -115 CGATGCCGCAAAGGCATAAAAAGTCGATGG 15 21 1 AAGGCATAAA 0.779341 -145 ACAGGATGACAGGGCGTAAAATCGTGGGAC 15 142 1 AGGGCGTAAA 0.869977 -24 GATCATCGGCAAGGAGAAAAAATTAA 17 89 1 AAGGAGAAAA 0.666067 -16 GTACCTCAGCAGGTGAATAAATTTTATTCA 19 89 1 AGGTGAATAA 0.56489 -180 GCTCCTGATGAGGGCGCTAA 22 18 1 AGGGCGCTAA 0.945843 -10 ********** Masking position 9 Map Score: 6.74849 Number of sites scoring better than the average of aligned sites = 1264 Number in coding regions = 1123 Number in noncoding regions = 141 Number of orfs with sites within 600 bp upstream = 152 Fraction of orfs with sites within 600 bp upstream = 0.0244137 Motif number 6 TGTCAGCTGACACTTCCTCTTATCTTATTG 4 30 0 CACTTCCTCT 0.883476 -176 TTTTTGTGATCACTCCGGCTTTTTTCGATC 4 114 1 CACTCCGGCT 0.97899 -92 AGTGATTTCTCACTCCCCCTTTCCACTTAA 5 15 0 CACTCCCCCT 0.994252 -44 AGTGAGAAATCACTCCCCCTGGTTTTTATA 5 31 1 CACTCCCCCT 0.994252 -28 GCCGGTCCTTCTCTCCGGCTGTAGCGCCTT 8 140 1 CTCTCCGGCT 0.906311 -39 AAGGGGGATAACCTCCCCCTCAGGTAAAAA 9 11 0 ACCTCCCCCT 0.954142 -37 CCTGACTTGCAACTCCCGCCGAAATCCTGC 13 40 1 AACTCCCGCC 0.94062 -55 TGGATCCGAAAACTTCCCCACTGTGAACGA 19 232 0 AACTTCCCCA 0.76252 -37 ********** Masking position 4 Map Score: 6.62202 Number of sites scoring better than the average of aligned sites = 112 Number in coding regions = 89 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 7 CCGTTGCAGTCAGAATGAAAAGCT 1 4 0 CAAATGAAAA 0.952896 -186 ATGTGTGTCACTGAATGATAAAACCGATAGC 3 103 1 CTAATGATAA 0.59618 -96 TCCATTTTATCAATAAGATAAGAGGAAGTGT 4 20 1 CATAAGATAA 0.884012 -186 ACTGACAATCCGTAAAGAAAACC 7 46 1 CGAAAGAAAA 0.849395 -13 ACGGCAGACGCGGTAAGAAAAATTCAGTTAA 8 19 0 CGTAAGAAAA 0.849395 -160 TTCGGGATATGACTATGAAAAAACTGTTAAT 8 100 1 GATATGAAAA 0.813004 -79 GAAGGACCGGCAAAATGATAATTAACAGTTT 8 120 0 CAAATGATAA 0.912985 -59 ACAAAAACGACAATATGAAAATTATTCGAGG 12 108 0 CATATGAAAA 0.952896 -90 CATTCTAACAGAAAAAGAAAACGTTTGCGTA 15 103 0 GAAAAGAAAA 0.759511 -63 GCCAGCGCGGCATTAAGATTACAGATATAAA 18 57 0 CATAAGATTA 0.630675 -183 TTGTTGATAACAATATGAATAAAATTTATTC 19 103 0 CATATGAATA 0.819252 -166 ATTTAAAATGCAAAATCAAAAACAATTTCCA 19 158 0 CAAATCAAAA 0.682674 -111 ** ******** Masking position 5 Map Score: 4.68166 Number of sites scoring better than the average of aligned sites = 539 Number in coding regions = 417 Number in noncoding regions = 122 Number of orfs with sites within 600 bp upstream = 142 Fraction of orfs with sites within 600 bp upstream = 0.0228076 Motif number 8 TGAGTAAAACCGTTGAGGGCAAAAATGTGGC 3 67 0 CGTGAGGGCA 0.94209 -132 CAACGCAACGTGGTGAGGGGAA 3 187 1 TGTGAGGGGA 0.964118 -12 TGCATTAAGTGGAAAGGGGGAGTGAGAAAT 5 10 1 TGAAAGGGGG 0.773632 -49 CTTGGAACGTTAGGGAGGGCGTATTGCCCTC 8 54 1 TAGGAGGGCG 0.926577 -125 ACTTTCCTGGTCTGGAGGGCAATACGCCCTC 8 68 0 TCGGAGGGCA 0.933981 -111 TTTTTACCTGAGGGGGAGGTTATCCC 9 6 1 ACTGAGGGGG 0.897902 -42 AACTCCTGATTGTTAAGGGGGATAACCTCCC 9 24 0 TGTAAGGGGG 0.942732 -24 GGCTTCCCTATCGGGAGGCCGTTTTTTTGCC 12 70 1 TCGGAGGCCG 0.866533 -128 TGCCTTCGCTGAGGGTGCCGGTCTGGC 13 7 1 CGTGAGGGTG 0.899189 -88 TCTCTGCTCCTGATGAGGGCGCTAA 22 13 1 TGTGAGGGCG 0.991593 -15 ** ******** Masking position 6 Map Score: 5.74601 Number of sites scoring better than the average of aligned sites = 408 Number in coding regions = 355 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 9 ACAGGTAATACATTATTCCTGTGGCTATCGG 3 126 0 CATTATCCTG 0.869557 -73 TTTTTTCGATCTTTATACTTGTATGGTAGTA 4 133 1 CTTTATCTTG 0.908367 -73 CATCGCTTGTCGTGATGCATGAAATCTACGC 4 172 0 CGTGATCATG 0.867185 -34 CGCTGGTACTCCTGATTCTGGCACTTTATTC 6 36 1 CCTGATCTGG 0.955758 -93 CCGCGTCTGCCGTTACACTTGGAACGTTAGG 8 37 1 CGTTACCTTG 0.877776 -142 TACGTATCCTTATACCTGAAATCTTCGC 16 8 1 CCTTATCCTG 0.972074 -91 TGAATTACCTTATCCTTGTTTTGTGATA 17 8 1 CCTTATCTTG 0.981034 -97 CGAAACTTTACCTGATTCTGGCAGTCAAATC 17 42 0 CCTGATCTGG 0.955758 -63 ****** **** Masking position 5 Map Score: 3.46323 Number of sites scoring better than the average of aligned sites = 113 Number in coding regions = 99 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 10 CAATATAGGCATAGCGCACAGACAGATAAAAAT 1 148 1 ATGCGCACGC 0.99018 -42 CGAAAAAAAAAGCCCGCACTGTCAGGTGCGGGC 2 35 0 AGCCGCACGC 0.986022 -47 GGGTGACGCTATTGTGCGCCGCCCCTGGAAAAA 7 13 0 ATGTGCGCGC 0.965808 -46 TCCCGCCGAAATCCTGCAAAGTCTGCCTGCAAG 13 53 1 ATCTGCAAGC 0.956572 -42 GCATTGCCCGATGCCGCAAAGGCATAAAAAGTC 15 13 1 ATCCGCAAGC 0.984891 -153 TGTAATCTTAATGCCGCGCTGGCGATGTTAGGA 18 65 1 ATCCGCGCGC 0.993786 -175 ** ****** * * Masking position 1 Map Score: 3.15685 Number of sites scoring better than the average of aligned sites = 172 Number in coding regions = 162 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 11 TAACCAGTTCAGAAGCTGCTATCAGACACTCTTTT 1 60 0 AGGCTGTCAG 0.896131 -130 GAACATAAATCCATTTTATCAATAAGATAAGA 4 8 1 AACATTTCAA 0.576193 -198 GATGAAATAGAATACCTTTTGTCAGCTGACACTTC 4 44 0 AACCTTTCAG 0.984084 -162 ATCATTTTGCCGGTCCTTCTCTCCGGCTGTAGCGC 8 132 1 CGCCTTTCCG 0.932748 -47 CTCCGGCTGTAGCGCCTTTAATCAGCTGGTTGAGC 8 152 1 AGCCTTTCAG 0.991835 -27 TATAACCACGAAGACCTTTATTCAGAAGGGAAAGT 18 181 0 AACCTTTCAG 0.984084 -59 AATGCATGCTCTCAGAGAAAATTAT 18 225 0 AACATGTCAG 0.856139 -15 TAAGCGATTCAGCACCTTACCTCAGGCACCTTCGG 19 32 1 AGCCTTTCAG 0.991835 -237 AAGAGCACAACGATCCTTCGTTCACAGTGGGGAAG 19 215 1 CGCCTTTCAC 0.907642 -54 ** **** **** Masking position 7 Map Score: 2.93914 Number of sites scoring better than the average of aligned sites = 254 Number in coding regions = 214 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 12 TTCATTCTGACTGCAACGGGCAATATGTCT 1 16 1 CTGCAACGGG 0.902251 -174 GTTAATAGCAACGCAACGTGGTGAGGGGAA 3 179 1 ACGCAACGTG 0.979386 -20 ATAGCACTGCCACGTATGTTTACACC 12 7 1 CTGCCACGTA 0.961896 -191 TATGCCAAAAACGCCACGTGTTTACGTGGC 18 19 1 ACGCCACGTG 0.986791 -221 TAAAAGCAAAACGCCACGTAAACACGTGGC 18 31 0 ACGCCACGTA 0.979386 -209 TTTTTTATTTCCGAAACGTACCTCAGCAGG 19 72 1 CCGAAACGTA 0.88024 -197 ********** Masking position 6 Map Score: 2.83686 Number of sites scoring better than the average of aligned sites = 251 Number in coding regions = 238 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 13 TCAGAAGCTGCTATCAGACACTCTTTTTTT 1 57 0 CTATCAGACA 0.940098 -133 ATAGGCATAGCGCACAGACAGATAAAAATT 1 152 1 CGCACAGACA 0.761275 -38 AAAGCCGGAGTGATCACAAAAAAAGGCGTA 4 106 0 TGATCACAAA 0.674483 -100 ATCGAGATAACGATCACAAAAACGACAATA 12 124 0 CGATCACAAA 0.948862 -74 GGGGCGCATTCTAACAGAAAAAGAAAACGT 15 110 0 CTAACAGAAA 0.873899 -56 GTCAAATCGGCTATCACAAAACAAGGATAA 17 20 0 CTATCACAAA 0.949825 -85 AATGCATGCTCTCAGAGAAAATTATTAG 18 222 0 CTCTCAGAGA 0.898857 -18 TAACGATCGACTATCACAGAAGA 19 4 0 CTATCACAGA 0.940098 -265 ********** Masking position 6 Map Score: 1.6914 Number of sites scoring better than the average of aligned sites = 104 Number in coding regions = 82 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 14 AAAAAAAAGCCCGCACTGTCAGGTGCGGGC 2 35 0 CCGCACTGTC 0.949137 -47 CCCTCCAGACCAGGAAAGTCTTCGGGATAT 8 80 1 CAGGAAAGTC 0.886281 -99 CCGGCACCCTCAGCGAAGGCA 13 2 0 CAGCGAAGGC 0.970539 -93 CGCCGAAATCCTGCAAAGTCTGCCTGCAAG 13 56 1 CTGCAAAGTC 0.94133 -39 TTGCCCGATGCCGCAAAGGCATAAAAAGTC 15 16 1 CCGCAAAGGC 0.987176 -150 AATCTTAATGCCGCGCTGGCGATGTTAGGA 18 68 1 CCGCGCTGGC 0.938133 -172 CATAACATGCCAGCAAATTCCAGGAATTTT 18 97 0 CAGCAAATTC 0.840216 -143 ********** Masking position 3 Map Score: 1.94574 Number of sites scoring better than the average of aligned sites = 782 Number in coding regions = 745 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 15 GTTTTACTCATTGCGATGTGTGTCACTGAA 3 88 1 TTGCGATGTG 0.944831 -111 AGGCGTATATTTGCGCTGTGAATGGTTGAC 4 83 0 TTGCGCTGTG 0.906525 -123 AAAAAGTCGATGGCGTTGAATATTTTTTCA 15 38 1 TGGCGTTGAA 0.818175 -128 TCAATAAAAATGGCGCTGAAAAAATATTCA 15 54 0 TGGCGCTGAA 0.924656 -112 CCAGGCATACTTGCGAAGATTTCAGGTATA 16 21 0 TTGCGAAGAT 0.739097 -78 TTCGGTTGGATTACGATGAGGATCATCGGC 17 69 1 TTACGATGAG 0.881901 -36 TTTTTCTCCTTGCCGATGATCCTCATCGTA 17 80 0 TGCCGATGAT 0.856541 -25 AATGCCGCGCTGGCGATGTTAGGAAAATTC 18 74 1 TGGCGATGTT 0.942169 -166 TTCGGATCCATGACGAGGAGCTGCACG 19 252 1 TGACGAGGAG 0.795786 -17 ********** Masking position 1 Map Score: 0.995377 Number of sites scoring better than the average of aligned sites = 1863 Number in coding regions = 1799 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644