AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/amcguire/genomes/bsub.fna -iglpR_bsub_opreg_300.orf -g0.435 -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 = 0.435 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 glpQ 98 glycerophosphoryl diester phosphodiesterase #2 glpT 296 glycerol-3-phosphate permease #3 yhxA 300 similar to adenosylmethionine-8-amino-7-oxononanoate aminotransferase #4 glpP 27 transcription antiterminator #5 glpF 178 glycerol uptake facilitator #6 glpD 140 glycerol-3-phosphate dehydrogenase #7 mobA 136 molybdopterin-guanine dinucleotide biosynthesis protein A #8 moeB 50 molybdopterin biosynthesis protein #9 yknU 223 similar to ABC transporter (ATP-binding protein) #10 yknW 109 yknW #11 fruR 279 transcriptional regulator (DeoR family) #12 yqhL 190 similar to hypothetical proteins #13 yqgP 89 similar to hypothetical proteins #14 yqgO 66 yqgO #15 yqgN 300 similar to 5-formyltetrahydrofolate cyclo-ligase #16 glcR 223 transcriptional regulator (DeoR family) #17 ywpH 76 similar to single-strand DNA-binding protein #18 ywpG 174 ywpG #19 iolR 300 transcriptional regulator (DeoR family) Motif number 1 GCATTTAGTAAAAGGATAATATTCACTTCCCTAAGGC 2 63 1 AAAAAATCAT 0.676474 -234 CTTTCCCGAAAAACAAAAAGAGCCAGAAAACACCCCT 2 222 0 AAAAAACCAA 0.985937 -75 TGCAGCTTCCAAAGCAAAACAGGCAAAGTGACAATGC 3 113 0 AAAAAAGCAA 0.93207 -188 AACCGCGTAAATAATAAAACATCCCCTTTCTCAAGAA 3 159 0 AAAAAACCCT 0.902528 -142 AGAGAAGAAGAGAATAAAAAAACCACAACAAACCGCT 5 114 0 AAAAAACCAA 0.985937 -65 ATAGAAAAAGAGACCACAACAGCCAAAGTGCATGCTT 6 87 0 AAAAAACCAA 0.985937 -54 CATGATGTTAACACTACAATATGCAAATACTGAACAG 7 26 1 AAAAAAGCAA 0.93207 -111 GAAATCACTAAACATAAAAAAACCTCATGCATGTTGC 11 17 0 ACAAAACCTA 0.702123 -263 ACGCCTACTGAAAGCAAAAAATCCCGTTTTTCACGGG 13 14 0 AAAAAACCCT 0.902528 -76 TGTTTGAGGTGTAAGAAAAAAGCCAGAGCTTTGAAAA 15 236 1 GAAAAACCAA 0.910929 -65 CCCCCTCGGAATAGAAAAAAAGCCAGAACCTTTTTCA 15 267 0 AAAAAACCAA 0.985937 -34 CTAAGTAGGCAAAAAGAAAGAACCAGTCTGGTCGACT 16 83 0 AAGAAACCAT 0.810438 -141 TTATATTCTAATCGCATAATACCCATAAGTCAATCAT 19 89 1 ACAAAACCAA 0.953162 -212 TAACATAAATATATAATAAAAACCAAAAGTTAATCAA 19 246 0 AAAAAACCAA 0.985937 -55 * * * ** * *** * Masking position 9 Map Score: 16.0023 Number of sites scoring better than the average of aligned sites = 121 Number in coding regions = 94 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 2 ACGCCGTTTACATCCGTTTTTTATTATGAAAGACAGG 1 44 1 CTCCTTTTAT 0.56029 -55 GAATATTATCCTTTTACTAAATGCAATTATATTTTTT 2 50 0 CTTTCTATGT 0.952915 -247 GGGGTGTTTTCTGGCTCTTTTTGTTTTTCGGGAAAGG 2 223 1 CGGCCTTTGT 0.674946 -74 TAATTATCCCCCTTTGCTGTTTGTGCTGGATGTGTGG 2 267 0 CTTTCTTTGT 0.977114 -30 GAAGCCTAGCCGTTTTCTGTATGATATAGGAAATGGC 3 13 0 CTTTCTATGT 0.95292 -288 TTGAAACAGACCTTCTCTTTATGTGATGTCTTGGTGA 3 243 0 CTTCCTATGT 0.938868 -58 GTTGTGGTCTCTTTTTCTATTTACCGTGACAACAAGG 6 104 1 CTTTCTTTAT 0.951058 -37 TACGTTTCCTCCTTGTTGTCACGGTAAAT 6 122 0 CTTTCTTTGT 0.977114 -19 TCGAACCATCTCCCTCATGATGTTAACACTACA 7 7 1 CTCTCCATGT 0.716345 -130 CAAACCTGTTCTCCTTATCTTTTATGTCATC 8 30 0 CTGTCTTTAT 0.921544 -21 AATTGTACGACATTTTCTTCTTATTTTAATGAAAAAA 11 73 0 CTTTCTTTAT 0.951058 -207 ATTACTTTGGCTTGCACTGAATGTCGTGAGCGTAACT 15 89 1 CTGCCTATGT 0.902754 -212 CAAAATAACAGCTTTGCTGTTTGAGGTGTAAGAAAAA 15 219 1 GTTTCTTTGT 0.736361 -82 GCGATTCCTCCTCTCCTTGCGGTTGTATGTATT 17 54 0 CTCCCTTTGT 0.951413 -23 TGTAAATATGCATCCGCCATTTATTTTT 19 2 0 CTCCCCTTAT 0.64786 -299 CAAAAAGTAACCTGTTGTGCATGAAATGGTTGCTTGT 19 40 0 CTGTGTATGT 0.653759 -261 ACTTTTTGGTCATTTCTTGGTTATATTCTAATCGCAT 19 69 1 CTTTTTTTAT 0.735325 -232 ATAAACACTACATTTTTTCATTATTTTTATTATATTA 19 124 1 CTTTTTTTAT 0.735325 -177 TATTGATTAACTTTTGGTTTTTATTATATATTTATGT 19 244 1 CTTTGTTTAT 0.749944 -57 * *** ** *** * Masking position 12 Map Score: 11.5732 Number of sites scoring better than the average of aligned sites = 937 Number in coding regions = 769 Number in noncoding regions = 168 Number of orfs with sites within 600 bp upstream = 183 Fraction of orfs with sites within 600 bp upstream = 0.0293929 Motif number 3 ACTACCTGTCTTTCATAATAAAAAACGGAT 1 55 0 TTTCATAATA 0.692193 -44 CTGCTTGTCTGTTTATTAAAGAGGAATAGC 7 62 0 GTTTATTAAA 0.471553 -75 TCACCTCTAGTTTCGTTAAAAGCATAGCAA 7 111 0 TTTCGTTAAA 0.607971 -26 AAAAGACTTTTTTCATTAAAATAAGAAGAA 11 66 1 TTTCATTAAA 0.903113 -214 TTGAATACAATTTCATTGTAAACGCTATTT 11 230 0 TTTCATTGTA 0.770098 -50 GATAAACTGATTCTATTAAAACGGTAAGGA 12 21 0 TTCTATTAAA 0.672618 -170 AATATTTTAGTTCCATTATAGATGACAATC 12 71 1 TTCCATTATA 0.939744 -120 AATAGTTTTTTTTCATTATAACAGCTGGCG 13 58 0 TTTCATTATA 0.954934 -32 CGTCCATTATAGTGGTATTAT 15 2 1 GTCCATTATA 0.831329 -299 TTTTCTTGCCTTCCATTATAACATAAACGT 18 38 1 TTCCATTATA 0.939744 -137 ATTTCTATTTTTTCATTATACTGTAACTGA 18 131 1 TTTCATTATA 0.954934 -44 TTTTCATTATTTTTATTATATTAATCTTTT 19 138 1 TTTTATTATA 0.858861 -163 AACTTTTGGTTTTTATTATATATTTATGTT 19 252 1 TTTTATTATA 0.858861 -49 ********** Masking position 10 Map Score: 11.5884 Number of sites scoring better than the average of aligned sites = 288 Number in coding regions = 202 Number in noncoding regions = 86 Number of orfs with sites within 600 bp upstream = 112 Fraction of orfs with sites within 600 bp upstream = 0.0179891 Motif number 4 TTTTCCAACACGCCGTTTACATCCGTTTTTT 1 35 1 CCCGTTTACA 0.866459 -64 AGTGAATATTATCCTTTTACTAAATGCAATT 2 59 0 ACCTTTTACT 0.760051 -238 TTTGAAAATTACCCGTTTACATTCGCTCCGG 2 104 1 ACCGTTTACA 0.949294 -193 TGTGAAGCCTAGCCGTTTTCTGTATGATATA 3 22 0 ACCGTTTTCT 0.961022 -279 TGGAAGCTGCATCCTCTTTCTTCTTGAGAAA 3 139 1 ACCTCTTTCT 0.834003 -162 ATAATAAAACATCCCCTTTCTCAAGAAGAAA 3 155 0 ACCCCTTTCT 0.74665 -146 CACCGCTTTCATGCACTGATA 5 1 1 CCCGCTTTCA 0.911438 -178 TATGTAGAATAAACGCTTACAGAAAATCATT 9 83 0 AACGCTTACA 0.772722 -141 TTCAAAATGAATACGTTTTCATTAGGAGGTG 11 255 1 AACGTTTTCA 0.888497 -25 AAGGTCATAGAGCCGTTTTCGACAAATACTA 12 120 0 ACCGTTTTCG 0.953359 -71 AAAAAGCCAGAACCTTTTTCAAAGCTCTGGC 15 257 0 ACCTTTTTCA 0.899409 -44 ATTATAACATAAACGTTTTCGAGGAAAAAAT 18 52 1 AACGTTTTCG 0.818585 -123 * ********* Masking position 7 Map Score: 7.93067 Number of sites scoring better than the average of aligned sites = 805 Number in coding regions = 721 Number in noncoding regions = 84 Number of orfs with sites within 600 bp upstream = 100 Fraction of orfs with sites within 600 bp upstream = 0.0160617 Motif number 5 ATAAAAATCTGGAGGGAGGCTGTTTAAAG 2 10 0 GGAGGGAGGC 0.89668 -287 AGCTTGGATGGAGATGAGGAGAGCCAGGAA 2 175 1 GAGATGAGGA 0.957237 -122 TGTTTTTCGGGAAAGGAGGCACGCCACACA 2 244 1 GAAAGGAGGC 0.892564 -53 GAACGGTCCTGAGATGAGGAGAGACCACAG 6 46 1 GAGATGAGGA 0.957237 -95 AAACCCTATTGGCAGGAGGGATATC 14 52 1 GGCAGGAGGG 0.929894 -15 TATTCCGAGGGGGATGAGAG 15 291 1 GGGATGAGAG 0.911689 -10 GATAGATAACGGGAGGAGCAGGGGTG 16 7 0 GGGAGGAGCA 0.922361 -217 CAATTTTGAGGGGATGATGCGAAGATCCGG 16 50 0 GGGATGATGC 0.824729 -174 GCTGAGAAAAGGAATGAGGGC 16 213 1 GGAATGAGGG 0.943978 -11 CAACCGCAAGGAGAGGAGGAATCGC 17 62 1 GAGAGGAGGA 0.967783 -15 GGAAGTAATCGGGGTGAGAAGAA 18 4 0 GGGGTGAGAA 0.801679 -171 ********** Masking position 7 Map Score: 7.56366 Number of sites scoring better than the average of aligned sites = 377 Number in coding regions = 278 Number in noncoding regions = 99 Number of orfs with sites within 600 bp upstream = 100 Fraction of orfs with sites within 600 bp upstream = 0.0160617 Motif number 6 TAAACAGCCTCCCTCCAGATTTTTATGTTAC 2 14 1 CCCTCCAGTT 0.969055 -283 CGTTTACATTCGCTCCGGACTATGATAATTT 2 117 1 CGCTCCGGCT 0.972501 -180 GACTCTGACCCGGTCTGGCTTTATATTGAAG 3 200 1 CGGTCTGGTT 0.954949 -101 ATCATCTCACCTCTAGTTTCGTTAAAAGC 7 118 0 ACCTCTAGTT 0.697909 -19 GGCTGAAATGCCGTCCGGTTT 9 1 0 CCGTCCGGTT 0.986556 -223 GGCATTTCAGCCGTCCGGTTTTTCTGTATTT 9 20 1 CCGTCCGGTT 0.986556 -204 GCATTATTTTCCCTCCAAACTAAAATCATTT 15 50 0 CCCTCCAACT 0.794004 -251 AAATTCAACGCGGTCTGGATTGTTGCGTTTG 15 142 0 CGGTCTGGTT 0.95495 -159 CCTTTTTCAAAGCTCTGGCTTTTTTCTTACA 15 245 0 AGCTCTGGTT 0.785576 -56 TAAGAGAAGGCCGTCCAATCTTGCAAAAGAT 19 184 1 CCGTCCAACT 0.794004 -117 ******** ** Masking position 4 Map Score: 7.25178 Number of sites scoring better than the average of aligned sites = 437 Number in coding regions = 368 Number in noncoding regions = 69 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 7 TATGTAGAATAAACGCTTACAGAAAATCATT 9 83 0 AAACCTTACA 0.749464 -141 TATGAAAAGCCTTCAATATTGAAGG 10 5 1 AAAACCTTCA 0.973288 -105 ATAAATTTCCAAAAACCTTCAATATTGAAGG 10 20 0 AAAACCTTCA 0.973295 -90 AATAACTATCAAAATCTTTCACGTTTCTCCA 11 164 0 AAAACTTTCA 0.892894 -116 TTAGGCAACTAAAATCATTCAAATTCATTCA 11 194 0 AAAACATTCA 0.82541 -86 ATATAAAATCAAAACCCTGCTTCATAAAACA 12 150 0 AAAACCTGCT 0.92788 -41 TGGCGCTCCGAAACGCCTACTGAAAGCAAAA 13 32 0 AAACCCTACT 0.872784 -58 TTTCGAGGAAAAAATCCTGCAATGTTGGGGC 18 68 1 AAAACCTGCA 0.960825 -107 ATAAAAAACTCCTTCTTGAATCTTTA 19 285 0 AAACCCTTCT 0.940371 -16 **** ****** Masking position 8 Map Score: 5.87479 Number of sites scoring better than the average of aligned sites = 257 Number in coding regions = 205 Number in noncoding regions = 52 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 8 TAATTATCCCCCTTTGCTGTTTGTGCTGGA 2 274 0 CCTTTGCTGT 0.87169 -23 CACTTTGCCTGTTTTGCTTTGGAAGCTGCA 3 120 1 GTTTTGCTTT 0.896003 -181 GTAAAGAGCTGCTGTGGTCTCCGAGTTCTC 5 61 0 GCTGTGGTCT 0.971506 -118 AAAGCGGTTTGTTGTGGTTTTTTTATTCTC 5 112 1 GTTGTGGTTT 0.920395 -67 ACACTTTGGTGCTGTGGTCTCTCCTCATCT 6 57 0 GCTGTGGTCT 0.971506 -84 CACTTTGGCTGTTGTGGTCTCTTTTTCTAT 6 94 1 GTTGTGGTCT 0.926071 -47 TAGCGTTGAGCCTTTGCTTTTGCTATGCTT 7 92 1 CCTTTGCTTT 0.92306 -45 CTTTGCTTTTGCTATGCTTTTAACGAAACT 7 103 1 GCTATGCTTT 0.829598 -34 TGACAATCACGCTGTGCTTTACTATAATAG 12 93 1 GCTGTGCTTT 0.969202 -98 TGGATTGTTGCGTTTGGTCTTTTTAGAAAT 15 128 0 CGTTTGGTCT 0.682666 -173 CAAAATAACAGCTTTGCTGTTTGAGGTGTA 15 219 1 GCTTTGCTGT 0.929968 -82 TATTGATTAACTTTTGGTTTTTATTATATA 19 244 1 CTTTTGGTTT 0.815081 -57 ********** Masking position 5 Map Score: 10.8013 Number of sites scoring better than the average of aligned sites = 260 Number in coding regions = 230 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 9 ATATAAAAGACTTTTTTCATTAAAATAAGA 11 62 1 CTTTTTTCAT 0.931933 -218 GAAAAACGGGATTTTTTGCTTTCAGTAGGC 13 19 1 ATTTTTTGCT 0.752221 -71 CTCCAATAGTTTTTTTTCATTATAACAGCT 13 62 0 TTTTTTTCAT 0.724031 -28 AAAGCTCTGGCTTTTTTCTTACACCTCAAA 15 238 0 CTTTTTTCTT 0.806255 -63 AAGGTTCTGGCTTTTTTTCTATTCCGAGGG 15 272 1 CTTTTTTTCT 0.725055 -29 CTGGTTCTTTCTTTTTGCCTACTTAGGAAA 16 94 1 CTTTTTGCCT 0.848711 -130 CGAGAGAACCAATTTTTCCTAAGTAGGCAA 16 108 0 AATTTTTCCT 0.74619 -116 ACATTGCAGGATTTTTTCCTCGAAAACGTT 18 63 0 ATTTTTTCCT 0.954325 -112 AATAATTTCTATTTTTTCATTATACTGTAA 18 127 1 ATTTTTTCAT 0.914049 -48 TAAACACTACATTTTTTCATTATTTTTATT 19 125 1 ATTTTTTCAT 0.914049 -176 ********** Masking position 5 Map Score: 4.95049 Number of sites scoring better than the average of aligned sites = 676 Number in coding regions = 522 Number in noncoding regions = 154 Number of orfs with sites within 600 bp upstream = 179 Fraction of orfs with sites within 600 bp upstream = 0.0287504 Motif number 10 TGAATTTGAATGATTTTAGTTGCCTAAACC 11 198 1 TGATTTTAGT 0.942811 -82 TTTGATAAACTGATTCTATTAAAACGGTAA 12 24 0 TGATTCTATT 0.926798 -167 AGCAGGGTTTTGATTTTATATGCTAAAGGA 12 160 1 TGATTTTATA 0.79025 -31 TGTGATTCTACTCCTTTAGCAT 12 179 0 TGATTCTACT 0.881327 -12 AATAAGTAAATGATTTTAGTTTGGAGGGAA 15 43 1 TGATTTTAGT 0.942811 -258 AGTTTTTATTTGATTTTATTCAACATTAAT 16 162 0 TGATTTTATT 0.938543 -62 ********** Masking position 5 Map Score: 1.48968 Number of sites scoring better than the average of aligned sites = 117 Number in coding regions = 103 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 11 AAACTATTAATCTTTTATGTGTCTTTC 1 8 0 TCTTTTATGT 0.885148 -91 CAACGCTACTGCTTGTCTGTTTATTAAAGA 7 70 0 GCTTGTCTGT 0.961496 -67 GTTCTCCTTATCTTTTATGTCATCTTATCA 8 24 0 TCTTTTATGT 0.885148 -27 CAGCCGTCCGGTTTTTCTGTATTTCATTGG 9 27 1 GTTTTTCTGT 0.891994 -197 AGCATACAATGATTTTCTGTAAGCGTTTAT 9 76 1 GATTTTCTGT 0.824053 -148 TGCATGAGGTTTTTTTATGTTTAGTGATTT 11 23 1 TTTTTTATGT 0.677669 -257 CAAAATAACAGCTTTGCTGTTTGAGGTGTA 15 219 1 GCTTTGCTGT 0.876137 -82 CTCTCCTTGCGGTTGTATGTATTGTAAATG 17 47 0 GGTTGTATGT 0.816424 -30 TGAAATGGTTGCTTGTATGTAAATATGCAT 19 26 0 GCTTGTATGT 0.950972 -275 ********** Masking position 4 Map Score: 3.82593 Number of sites scoring better than the average of aligned sites = 314 Number in coding regions = 234 Number in noncoding regions = 80 Number of orfs with sites within 600 bp upstream = 83 Fraction of orfs with sites within 600 bp upstream = 0.0133312 Motif number 12 TAATAGCTTGGATGGAGATGAGGAGAGCCA 2 171 1 GATGGAGATG 0.979079 -126 AATACATTGTGATGGAGAACTCGGAGACCA 5 47 1 GATGGAGAAC 0.929132 -132 TAAAAAGCATGATAGAGAAGAAGAGAATAA 5 134 0 GATAGAGAAG 0.79511 -45 TTAACATCATGAGGGAGATGGTTCGA 7 7 0 GAGGGAGATG 0.986594 -130 CTATTGGCAGGAGGGATATC 14 57 1 GAGGGATATC 0.856121 -10 TTTCTATTCCGAGGGGGATGAGAG 15 287 1 GAGGGGGATG 0.96417 -14 ********** Masking position 8 Map Score: 1.2009 Number of sites scoring better than the average of aligned sites = 174 Number in coding regions = 141 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 13 ********** No masking Map Score: -1.14373e-11 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 14 GGTCTGTTTCAATTGAATTGGCATTATAGGGAAC 3 268 1 AATTATGCAT 0.775759 -33 GGTTTTTCTGTATTTCATTGGCATATCCCCAAGT 9 36 1 TATTATGCAT 0.960916 -188 CAATTGTCCTTATTTTTGTCGAATTTACAGTTTA 11 105 1 TATTTTGAAT 0.910364 -175 AATGAAAACGTATTCATTTTGAATACAATTTCAT 11 244 0 TATTTTGAAT 0.910364 -36 AAATGGAAAATATTTTAGTTCCATTATAGATGAC 12 63 1 TATTATCCAT 0.760973 -128 TGTGATTCTACTCCTTTAGCATATAAAATCAA 12 169 0 TACTTTGCAT 0.882446 -22 TGCGCGTTAATATTACTTTGGCTTGCACTGAATG 15 78 1 TATTTTGCTT 0.835115 -223 TAAAATCACTTATTAATGTTGAATAAAATCAAAT 16 151 1 TATTTTGAAT 0.910364 -73 AGCGTTTTTCTTTTCTTGTTGCATCATTTACAAT 17 23 1 TTTTTTGCAT 0.835115 -54 TTCTTGGTTATATTCTAATCGCATAATACCCATA 19 82 1 TATTATGCAT 0.960916 -219 **** * * **** Masking position 9 Map Score: 1.93686 Number of sites scoring better than the average of aligned sites = 45 Number in coding regions = 32 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 15 AAACGGCGTGTTGGAAAACTATTAATCTTTT 1 22 0 TTGAAAACTA 0.871456 -77 TAAGGCCCAATTTGAAAATTACCCGTTTACA 2 94 1 TTGAAAATTA 0.889696 -203 AGACTGAAATTTTGAAAAATAATAGAAATTT 9 152 1 TTGAAAAATA 0.956583 -72 TTGAAGGTTTTTGGAAATTTATTAGAAAAAC 10 29 1 TTGAAATTTA 0.718219 -81 TGGAAATTTATTAGAAAAACATGAAACTTTT 10 40 1 TTGAAAAACA 0.854058 -70 AAACTGTAAATTCGACAAAAATAAGGACAAT 11 107 0 TTGACAAAAA 0.658703 -173 TAGAGCCGTTTTCGACAAATACTATTATAGT 12 113 0 TTGACAAATA 0.915036 -78 TTTGGTCTTTTTAGAAATATAGTTACGCTCA 15 115 0 TTGAAATATA 0.874411 -186 CCGCGTTGAATTTAAAAAATATTGCCCACGT 15 160 1 TTAAAAAATA 0.683541 -141 ** ******** Masking position 5 Map Score: 0.42397 Number of sites scoring better than the average of aligned sites = 207 Number in coding regions = 139 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 64 Fraction of orfs with sites within 600 bp upstream = 0.0102795