AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00930_ecoli_reg_300.orf -o00930_ecoli_300.ace -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/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 mhpA 76 3-(3-hydroxyphenyl)propionate hydroxylase #2 yaiB 300 orf, hypothetical protein #3 phoA 31 alkaline phosphatase #4 ybaC 151 putative lipase (EC 3.1.1.-) #5 hyaA 300 hydrogenase-1 small subunit #6 appC 133 probable third cytochrome oxidase, subunit I #7 appA 184 phosphoanhydride phosphorylase; pH 2.5 acid phosphatase; periplasmic #8 hemA 213 enzyme in alternate path of synthesis of 5-aminolevulinate #9 rspA 205 starvation sensing protein #10 b1582 134 orf, hypothetical protein #11 gatD 47 galactitol-1-phosphate dehydrogenase #12 gatB 30 galactitol-specific enzyme IIB of phosphotransferase system #13 gatZ 28 putative tagatose 6-phosphate kinase 1 #14 gatY 197 tagatose-bisphosphate aldolase 1 #15 BIME96 27 BIME #16 b2097 184 orf, hypothetical protein #17 pdxB 98 erythronate-4-phosphate dehyrogenase #18 epd 284 D-erythrose 4-phosphate dehydrogenase #19 yggD 21 putative transcriptional regulator #20 cmtA 27 PTS system, mannitol-specific enzyme II component, cryptic #21 cmtB 300 PTS system, mannitol-specific enzyme II component, cryptic #22 trxA 76 thioredoxin 1 #23 rhoL 140 rho operon leader peptide #24 rho 84 transcription termination factor Rho; polarity suppressor #25 rfe 239 UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase; synthesis of enterobacterial common antigen (ECA) #26 aphA 300 diadenosine tetraphosphatase Motif number 1 GAAAAAAACTCACCGCATGGCCATTTAAGCCA 2 37 0 CACGCATGCC 0.954048 -264 CAAGGCAAACCATCGCTTCACGTGAGATGCTG 5 206 0 CACGCTTCCG 0.993901 -95 GCTACAGGGACGTCGCTTGCCGACCATAAGCG 5 237 1 CGCGCTTGCG 0.976185 -64 GATGCTAATGCGCCGCATCAGGCCTACGTTCG 7 116 0 CGCGCATCGG 0.981201 -69 GGCGCATTAGCATCGCATCAGGCAATCAATAA 7 134 1 CACGCATCGG 0.990722 -51 CGATTCCTTGCATCGCTTGTCGTGATGCATGA 9 181 0 CACGCTTGCG 0.988231 -25 CGTATGTTTACACCGCATCCGGCATAAAAACA 14 23 1 CACGCATCGG 0.990722 -175 TAATCGACTGAAACGCTTCAGCTAGGATAAGC 18 148 0 AACGCTTCGC 0.797091 -137 TTGTAATTTCCAACGCTTCCCGTTTTATCTTA 23 118 1 CACGCTTCCG 0.993901 -23 ** ****** ** Masking position 8 Map Score: 13.0674 Number of sites scoring better than the average of aligned sites = 726 Number in coding regions = 369 Number in noncoding regions = 357 Number of orfs with sites within 600 bp upstream = 111 Fraction of orfs with sites within 600 bp upstream = 0.0178285 Motif number 2 AAATATTTGCGCAAAGTATTTCCTTTGTCATAA 2 201 1 GCAGTATTCC 0.901532 -100 CCGGGCGGTGGGGATGTTTAGCCGGTTGCTAAA 5 32 0 GGAGTTTACC 0.94724 -269 CTCACGTGAAGCGATGGTTTGCCTTGCTACAGG 5 212 1 GCAGGTTTCC 0.974538 -89 CCCTTGTGTTGGTATGGCTGGACCCGCGTCTGA 7 75 1 GGAGGCTGAC 0.657804 -110 ACACCCTCCTGGTACGTTTTGCGTCCGCAGTGG 10 54 0 GGAGTTTTCG 0.872933 -81 TTTACCTGAGGGGGAGGTTATCCCCCTTAACAA 11 13 1 GGGGGTTACC 0.878175 -35 CGCGCACTTTGCTACGGCTTCCCTATCGGGAGG 14 55 1 GCAGGCTTCC 0.942214 -143 GGTCGTTACGGGCGAGTTTTTCCATCTTTTGGA 16 156 0 GGGGTTTTCC 0.956592 -29 TGGAATAAAAGGAATGTTTGTCCAGCCGAAGAA 18 109 0 GGAGTTTGCC 0.965238 -176 GTTTGCGACAGGTAAGGTTTCCCCGGACGATTT 18 209 1 GGAGGTTTCC 0.969341 -76 AGATCTCCTGCAAGGTTTTCCCTGAGCAAATT 18 263 0 GCAGTTTTCC 0.970624 -22 AAAAAAGACAGGAACGTATTTACTGGGTTAAAT 26 143 1 GGAGTATTAC 0.713882 -158 ** * ***** ** Masking position 9 Map Score: 9.12656 Number of sites scoring better than the average of aligned sites = 480 Number in coding regions = 439 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 3 GGCGGGATCGCATTTTCATGGCAGTGGTTCCT 4 99 1 CATTCATGGC 0.809193 -53 ACCGGCTAAACATCCCCACCGCCCGGCCAAAA 5 39 1 CATCCACCGC 0.977679 -262 AAAATAGGTCCATTTTTATCGCTAAAAGATAA 5 73 1 CATTTATCGC 0.897993 -228 TGATGCGGCGCATTAGCATCGCATCAGGCAAT 7 128 1 CATTCATCGC 0.975537 -57 TTTTGTCAACCATTCACAGCGCAAATATACGC 9 79 1 CATTCAGCGC 0.970641 -127 CTGCCACGTATGTTTACACCGCATCCGGCATA 14 17 1 TGTTCACCGC 0.949219 -181 TATTAAGTGGTATTGTCATCGCGTACCTTACA 16 36 0 TATTCATCGC 0.944501 -149 AGCGCGGTCAAGTTTTCACCGCAAAGGTATTT 16 77 0 AGTTCACCGC 0.909243 -108 TAACAACAAATGTCAATACCGCATATCGTGAT 21 134 0 TGTCTACCGC 0.697597 -167 ACGAGTATTTTATTTTTACCGCCGGACGGTAC 21 254 1 TATTTACCGC 0.880684 -47 TGAATCTTGTAATTTCCAACGCTTCCCGTTTT 23 112 1 AATTCAACGC 0.734913 -29 ATTTTCCTAACATCGCCAGCGCGGCATTAAGA 25 70 0 CATCCAGCGC 0.948672 -170 **** ****** Masking position 8 Map Score: 8.70721 Number of sites scoring better than the average of aligned sites = 992 Number in coding regions = 929 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 4 AAATATAGGCTTTTAATTATCAACCTTTATT 2 118 0 TTTTATTATC 0.572112 -183 TCTGGAAGTATTATTTTTATGACAAAGGAAA 2 219 0 TTATTTTATG 0.544096 -82 TTCGTCGGCATTTTGTTGATGTGTTCGCTCT 7 41 1 TTTTGTGATG 0.849506 -144 GGGCGCTCTCTTTTATTGATCTTACGCATCC 8 140 1 TTTTATGATC 0.905867 -74 TATACGCCTTTTTTTGTGATCACTCCGGCTT 9 104 1 TTTTTTGATC 0.960254 -102 TCACTCCGGCTTTTTTCGATCTTTATACTTG 9 123 1 TTTTTCGATC 0.805731 -83 AGGAGGGTGTTTATATTGATGATATTATGTC 10 77 1 TTATATGATG 0.773825 -58 CATATTGTCGTTTTTGTGATCGTTATCTCGA 14 122 1 TTTTTTGATC 0.960254 -76 GCGCTAACATTTTTTCTGATGAATCGAGCCA 16 104 1 TTTTTTGATG 0.960254 -81 TGCATATAAATATTTGTGATCTACAACACGC 21 79 0 TATTTTGATC 0.736728 -222 AATTTTACGTTTATTATGATGAATCCTCGGC 26 73 0 TTATTTGATG 0.89572 -228 TTATCTGCGGTTTTTGTGATGAAAAGCAGGA 26 183 0 TTTTTTGATG 0.960254 -118 ***** ***** Masking position 9 Map Score: 8.49931 Number of sites scoring better than the average of aligned sites = 279 Number in coding regions = 226 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 5 TTCAGTACCTCACGACTCGGACAAAATG 1 59 0 CTCACGACTC 0.910274 -18 GTGCAAAAGTTTCACTACGCTTTATTAACA 5 128 1 TTCACTACGC 0.508906 -173 TCTGCACTGGCGCACGTCGCCAGAAAGTAT 5 158 0 CGCACGTCGC 0.948855 -143 ATCGCACGTCTCTCCTCCTTGC 5 289 0 CGCACGTCTC 0.944825 -12 GGTTATTTTTCTCTCTTCGCCTACAGGAGT 6 110 1 CTCTCTTCGC 0.897075 -24 GCGCACTCCTGTAGGCGAAGA 6 123 0 CGCACTCCTG 0.826082 -11 TTGATGTGTTCGCTCTCCACCCTTGTGTTG 7 56 1 CGCTCTCCAC 0.854941 -129 TTTTTTGCCTTTCACTCCTCGAATAATTTT 14 92 1 TTCACTCCTC 0.807018 -106 GTCCGGTTAACTCTCGTCTCATACAGGTAA 17 72 1 CTCTCGTCTC 0.915225 -27 ATTTATCTGACTCACATCACACTTTTATCC 18 76 0 CTCACATCAC 0.769432 -209 TTACTCTCTCCTCTACAGGATAA 20 4 1 CTCTCTCCTC 0.938654 -24 GTTAGCATGACTCACGCCGGGCGTCCAGTT 23 44 0 CTCACGCCGG 0.903889 -97 AGTTTAAGAACTCACACCACT 24 74 1 CTCACACCAC 0.863892 -11 ********** Masking position 5 Map Score: 8.739 Number of sites scoring better than the average of aligned sites = 841 Number in coding regions = 768 Number in noncoding regions = 73 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 6 CTTTATGACAGCTGTTGAAAAG 3 20 0 TTATGACAGC 0.926345 -12 TGAGATGCTGAAAACGAAAGCTCATCCTTCT 5 185 0 AAACGAAAGC 0.861647 -116 GTTATAACCCTTAATGCTAGCGTTACCGTCC 8 41 1 TTATGCTAGC 0.850814 -173 AACTTGAACATAGACGATAGCGGACGGTAAC 8 62 0 TAACGATAGC 0.763007 -152 TTTGGAGTAATTGCCGAAAGCCGTTAGATTC 8 106 0 TTCCGAAAGC 0.777729 -108 CGCATCCTGTATGATGCAAGCAGACTAACCC 8 164 1 ATATGCAAGC 0.916888 -50 TAGGGTTATTATTACGCCAGCCTGGAATAAA 18 30 1 ATACGCCAGC 0.964303 -255 CTCGTGCGGTTTAATGAAAGCAATTGAGCAG 21 228 0 TTATGAAAGC 0.90714 -73 TTACTATTGCTTTACGAAAGCGTATCCGGTG 22 30 1 TTACGAAAGC 0.948928 -47 CAAATTGCATAACATGCCAGCAAATTCCAGG 25 103 0 AAATGCCAGC 0.849789 -137 CCATCTGACCATAACGCCAGCTGCCGGGGAA 26 222 0 ATACGCCAGC 0.964303 -79 ** ******** Masking position 9 Map Score: 6.65563 Number of sites scoring better than the average of aligned sites = 512 Number in coding regions = 469 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 7 GCGCGCAACGACATTTTGTCCGAGTCGTGA 1 48 1 ACATTTTGTC 0.886424 -29 TTAATTATCAACCTTTATTATAAATAAAAG 2 107 0 ACCTTTATTA 0.846917 -194 GAAATAGAATACCTTTTGTCAGCTGACACT 9 46 0 ACCTTTTGTC 0.960313 -160 ATTCTATTTCATCTTTTGTCAACCATTCAC 9 66 1 ATCTTTTGTC 0.655955 -140 GTGTAGAATCACCTTTAATCATTCATACAG 10 21 0 ACCTTTAATC 0.891024 -114 GACCGCGCTAACATTTTTTCTGATGAATCG 16 100 1 ACATTTTTTC 0.878105 -85 TTTTGTGGGAAGCTTTATTCCAGGCTGGCG 18 44 0 AGCTTTATTC 0.722858 -241 TAATTGTCGAACATTTAATCGACTGAAACG 18 165 0 ACATTTAATC 0.725064 -120 TGCTTCGGCGACCTTTTTTATTACCTTGAT 21 19 1 ACCTTTTTTA 0.846917 -282 AATAAAGTCAACCTTTAGTTGGTTA 22 62 1 ACCTTTAGTT 0.703456 -15 AACCACGAAGACCTTTATTCAGAAGGGAAA 25 183 0 ACCTTTATTC 0.957145 -57 CGAGTAATAAACATTTTTTATACAAAAAAA 26 119 1 ACATTTTTTA 0.640859 -182 ********** Masking position 1 Map Score: 5.90287 Number of sites scoring better than the average of aligned sites = 183 Number in coding regions = 155 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 8 TTAACACAATCTGACGGGAGCGCGCGAGACGCA 4 47 1 CGCGGGACGC 0.996756 -105 TCAATATCAGCAGGCGGGATCGCATTTTCATGG 4 87 1 CGCGGGACGC 0.996756 -65 GCCCGGTGTCCTGCCGGTGTCGCAAGGAGGAGA 5 268 1 CGCGGTGCGC 0.993864 -33 AAAGACGGTAAGTATCGCTTTCAGTCTT 6 6 1 CGAAGTACGC 0.91084 -128 TAGACGATAGCGGACGGTAACGCTAGCATTAAG 8 50 0 CGCGGTACGC 0.994909 -164 GCAATTACTCCAAAAGGGGGCGCTCTCTTTTAT 8 123 1 CAAGGGGCGC 0.930155 -91 * * ***** *** Masking position 7 Map Score: 4.8086 Number of sites scoring better than the average of aligned sites = 226 Number in coding regions = 212 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 9 GCGCACAGTACAGCGCAACTTATTTTGTTAA 1 21 0 CACGCAACTT 0.909813 -56 GTTTGATTACCAGCGAAACGTTTCTCTTATT 2 167 0 CACGAAACGT 0.95499 -134 TAAGGGTTATAACTGCAACGTATCTCAAGGA 8 23 0 AATGCAACGT 0.946147 -191 ATAGCACTGCCACGTATGTTTACAC 14 5 1 CATGCCACGT 0.962433 -193 CAGCTAGGATAAGCGAAACGTGGAATAAAAG 18 131 0 AACGAAACGT 0.946145 -154 CTTATGCCAAAAACGCCACGTGTTTACGTGG 25 17 1 AACGCCACGT 0.987301 -223 TATAAAAGCAAAACGCCACGTAAACACGTGG 25 32 0 AACGCCACGT 0.987301 -208 ** ******** Masking position 8 Map Score: 4.24813 Number of sites scoring better than the average of aligned sites = 192 Number in coding regions = 179 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 10 ACAAAAACTCCTTTCAAATTA 4 141 0 AAAAAACTCC 0.740545 -11 GGAGTGATCACAAAAAAAGGCGTATATTTGC 9 99 0 CAAAAAAGGC 0.86778 -107 GTATAAAGATCGAAAAAAGCCGGAGTGATCA 9 120 0 CAAAAAAGCC 0.896056 -86 CTCTGTAACAATAAAAAGGACTATTT 12 15 1 AAAAAAGGAC 0.773186 -16 AGTGAAAGGCAAAAAAACGGCCTCCCGATAG 14 77 0 AAAAAACGGC 0.961349 -121 GATAACGATCACAAAAACGACAATATGAAAA 14 118 0 AAAAAACGAC 0.953696 -80 TTGAAATCGAAAACAAACGACAGGAT 14 182 1 AACAAACGAC 0.79503 -16 TTGTCTTATGCCAAAAACGCCACGTGTTTAC 25 13 1 CAAAAACGCC 0.968307 -227 CAGATATAAAAGCAAAACGCCACGTAAACAC 25 36 0 ACAAAACGCC 0.860185 -204 ATTTTTTATACAAAAAAAGACAGGAACGTAT 26 131 1 CAAAAAAGAC 0.844597 -170 GCTTTTCATCACAAAAACCGCAGATAATCCT 26 187 1 AAAAAACCGC 0.763072 -114 * ********* Masking position 6 Map Score: 3.98121 Number of sites scoring better than the average of aligned sites = 513 Number in coding regions = 390 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 121 Fraction of orfs with sites within 600 bp upstream = 0.0194346 Motif number 11 CAAATTACGTCATTGTAAGGAACCACTGCCAT 4 116 0 CATGAAGGAA 0.888865 -36 TCACGACAAGCGATGCAAGGAATCGAAC 9 188 1 CGTGAAGGAA 0.987891 -18 GCAGGGAAACCGGTGTTTTGAAAACAGTGAAT 21 200 0 CGTGTTTGAA 0.674116 -101 AATACTCGTGCGGTTTAATGAAAGCAATTGAG 21 231 0 CGTTAATGAA 0.891029 -70 AAAGCGTATCCGGTGAAATAAAGTCAACCTTT 22 46 1 CGTGAATAAA 0.802795 -31 GCCGCGCTGGCGATGTTAGGAAAATTCCTGGA 25 77 1 CGTGTAGGAA 0.96266 -163 ATCTGCTGTACGATTTAATGAACTTAATGATA 26 14 0 CGTTAATGAA 0.891029 -287 GTTTATTACTCGATGTAAGGATACATTAATTT 26 99 0 CGTGAAGGAT 0.927855 -202 CGCCAGCTGCCGGGGAAAGGAAGGATTATCTG 26 207 0 CGGGAAGGAA 0.950153 -94 ** ** ****** Masking position 11 Map Score: 3.19811 Number of sites scoring better than the average of aligned sites = 213 Number in coding regions = 188 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 12 TCTTATTTAAATAATTACCCACACAAAATATAGGC 2 139 0 AATTACCCCA 0.921065 -162 ACTGAAAGCGATACTTACCGTCTTT 6 1 0 AATTACCGCT 0.644168 -133 CGAAGAGAGAAAAATAACCCGATAATGGTAGATCT 6 94 0 AATAACCCAA 0.941178 -40 CCGCGTCTGAAAAGTTAACGAACGTAGGCCTGATG 7 98 1 AATTAACGAT 0.688822 -87 TGATGCAAGCAGACTAACCCTATCAACGTTGGTAT 8 175 1 AATAACCCAA 0.941178 -39 GTATGAGACGAGAGTTAACCGGACAAGTGTGCCAT 17 61 0 AATTAACCGA 0.769247 -38 GGCTGGCGTAATAATAACCCTACAATAACTGGAAT 18 17 0 AATAACCCAA 0.941178 -268 TAAATGTTCGACAATTAACCAATCAGTCGCAGTTT 18 178 1 AATTAACCAA 0.934504 -107 ATTAAGTTCGAGATTTACCCCAAGTTTAAGAACTC 24 52 1 AATTACCCAT 0.915321 -33 AGGATTCATCATAATAAACGTAAAATTAATGTATC 26 77 1 AATAAACGAA 0.766172 -224 CAGGATGATTATATTTAACCCAGTAAATACGTTCC 26 153 0 AATTAACCAA 0.934504 -148 * * ****** * * Masking position 7 Map Score: 2.46131 Number of sites scoring better than the average of aligned sites = 126 Number in coding regions = 98 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 13 GCCATTTAAGCCAGGAATAAATTAGCTTCC 2 20 0 CCAGGAATAA 0.953335 -281 GCCTTTCACTCCTCGAATAATTTTCATATT 14 98 1 CCTCGAATAA 0.950223 -100 CCCTACAATAACTGGAATAAATTG 18 5 0 ACTGGAATAA 0.927953 -280 ATTACGCCAGCCTGGAATAAAGCTTCCCAC 18 40 1 CCTGGAATAA 0.98534 -245 ATAAGCGAAACGTGGAATAAAAGGAATGTT 18 124 0 CGTGGAATAA 0.950223 -161 ********** Masking position 6 Map Score: 1.42779 Number of sites scoring better than the average of aligned sites = 31 Number in coding regions = 22 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 14 CCTCACGACTCGGACAAAATGTCGTTGCGCG 1 49 0 CGACAAAATG 0.964176 -28 ATAATACTTCCAGACACTATGAAGTTGTGAA 2 236 1 CGACACTATG 0.777757 -65 GGAGCAGAAACAATGTGGTATTTAC 7 5 1 CGAAACAATG 0.879165 -180 TCCAGCCATACCAACACAAGGGTGGAGAGCG 7 66 0 CAACACAAGG 0.908893 -119 GAAGTGTCAGCTGACAAAAGGTATTCTATTT 9 44 1 CGACAAAAGG 0.98144 -162 CTCGATTCATCAGAAAAAATGTTAGCGCGGT 16 101 0 CGAAAAAATG 0.898175 -84 AATAAAGCTTCCCACAAAAGGGGATAAAAGT 18 55 1 CCACAAAAGG 0.910439 -230 TAACCAACTAAAGGTTGACTTTAT 22 63 0 CAACTAAAGG 0.792615 -14 ACTTTCCCTTCTGAATAAAGGTCTTCGTGGT 25 181 1 CGAATAAAGG 0.845595 -59 * ********* Masking position 4 Map Score: 2.74794 Number of sites scoring better than the average of aligned sites = 257 Number in coding regions = 217 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 15 GTTAACTTATAATTAAGAGAAAAAAACTCA 2 57 0 AATTAAGAGA 0.644528 -244 CCTTTATTATAAATAAAAGTTATGAAATAT 2 96 0 AAATAAAAGT 0.584777 -205 GTAATTATTTAAATAAGAGAAACGTTTCGC 2 156 1 AAATAAGAGA 0.920012 -145 TGCGTAAGATCAATAAAAGAGAGCGCCCCC 8 138 0 CAATAAAAGA 0.920012 -76 TCCATTTTATCAATAAGATAAGAGGAAGTG 9 20 1 CAATAAGATA 0.829151 -186 TACATGATGTCAATAAGAGACAAAG 10 120 1 CAATAAGAGA 0.93674 -15 CCGGCGGTAAAAATAAAATACTCGTGCGGT 21 249 0 AAATAAAATA 0.745416 -52 GGTACCCTAAAAATAAAATAAGGATAATTT 21 281 1 AAATAAAATA 0.745416 -20 ATTTTTTATACAAAAAAAGACAGGAACGTA 26 131 1 CAAAAAAAGA 0.644528 -170 ********** Masking position 5 Map Score: 1.38214 Number of sites scoring better than the average of aligned sites = 49 Number in coding regions = 32 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295