AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00260_aquae_reg_100.orf -o00260_aquae_100.ace -a/home/amcguire/genomes/ORF_aquae.txt -z/home/amcguire/genomes/aquae.fna -g0.44 -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 = 0.44 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: glyS 22 glycyl-tRNA synthetase beta subunit putative 27 putative protein Input sequences: #1 serS 29 seryl-tRNA synthetase #2 thrC2 26 threonine synthase #3 aq_428 274 hypothetical protein #4 oppB 300 transporter (OppBC family) #5 aq_609 300 hypothetical protein #6 lpdA 85 dihydrolipoamide dehydrogenase #7 glyQ 290 glycyl-tRNA synthetase alpha subunit #8 gcsH4 269 glycine cleavage system protein H #9 lysC 35 aspartokinase #10 thrB 300 homoserine kinase #11 gcvT 144 aminomethyltransferase (glycine cleavage system T protein) #12 thrS 36 threonyl-tRNA synthetase #13 thrA 168 homoserine dehydrogenase #14 asd 300 aspartate-semialdehyde dehydrogenase #15 serA 27 D-3-phosphoglycerate dehydrogenase Motif number 1 TCTTCCTTGAACTTTAATCCTCTCGCTTCGGCATCCTC 3 179 0 ACTTTCTGCT 0.936462 -96 TGTCTATCTCCTCTTTGTGTTTTTCCTTCACGTACTTG 4 230 0 CTTTTTTCCT 0.753888 -71 ATGTCGCAATCCCTTATTGTAAGGGCATAACCCTGCAC 5 17 0 CCTTTTGGCT 0.993635 -284 AGGGATTGCGACATTTCTTTCTGTGCATTTAAAAAAAT 5 41 1 ACTTTTGGCT 0.985006 -260 ATGTCGCAATCCCTTATTGTAAGGGCATAACATTGATT 5 84 0 CCTTTTGGCT 0.993635 -217 AGGGATTGCGACATTTCTTTCTGTGCATTTAAAAAAAT 5 108 1 ACTTTTGGCT 0.985006 -193 AAGTCGCAATCCCTTATTGTAAGGGCATAACATTGATT 5 151 0 CCTTTTGGCT 0.993635 -150 TTATCACGATCCCTTACTGTTAGGGCGTAACGTATGCC 5 216 0 CCTTTTGGCT 0.993635 -85 AAGGATAAACACGTTATTCTTCTGGTTTCTCAATGGTG 7 19 1 ACTTTTTGTT 0.628649 -272 ACCCCCTCCTCTATTGCTTTGCGTGCTTCCGCTTCGTT 7 232 0 CTTTTTGGCT 0.960016 -59 CAAACTCTTCCTTTTCTTTACCGAGCTTCTCCCTGAGA 8 49 0 CTTTTAGGCT 0.830621 -221 TTGTATTTTCCCCTTTGTTTTTTAGCCTTTCT 10 5 0 CCTTTTTGCT 0.987031 -296 TACATTTATAAAATACCTTATTTGATTCT 10 282 0 ACTTTATCCT 0.631242 -19 AGTCCTTTAACCCTTTGTCCTGTATCTTTTATACTTG 13 10 0 CCTTTCTTCT 0.697592 -159 ATCAATAATTTCTTTTCTCCTGGGGCTTAAAATCCTGC 14 65 0 TCTTTCGGCT 0.862567 -236 GTCTTTATAGACGTTTTTGTAGTCCCTTTTTAAAATCT 14 146 0 ACTTTTTCCT 0.893403 -155 ** ** * * * ** * Masking position 8 Map Score: 22.8031 Number of sites scoring better than the average of aligned sites = 157 Number in coding regions = 134 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 2 GACGGAGTCCTGAGGTACCCTTCCAGGGAGGGGT 3 131 1 TGTCCCTTCC 0.950737 -144 AGGGACTTTTGCGAGTTTCCTTCTA 4 2 0 GCTTCCTTCT 0.691505 -299 AAGCGTGCAGGGTTATGCCCTTACAATAAGGGAT 5 13 1 GGTCCCTTAC 0.985359 -288 GAAAGAAATGTCGCAATCCCTTATTGTAAGGGCA 5 28 0 TCACCCTTAT 0.952024 -273 TCCCAATCAATGTTATGCCCTTACAATAAGGGAT 5 80 1 TGTCCCTTAC 0.976711 -221 GAAAGAAATGTCGCAATCCCTTATTGTAAGGGCA 5 95 0 TCACCCTTAT 0.952024 -206 TCCCAATCAATGTTATGCCCTTACAATAAGGGAT 5 147 1 TGTCCCTTAC 0.976711 -154 TAAAGCAAAGTCGCAATCCCTTATTGTAAGGGCA 5 162 0 TCACCCTTAT 0.952024 -139 CGTAACGTATGCCTTATCGCTTATTAAGTATTAT 5 195 0 GCACGCTTAT 0.756616 -106 GGAAATTTTATCACGATCCCTTACTGTTAGGGCG 5 227 0 TCACCCTTAC 0.969554 -74 AACCGTGGAAGGAACACTCCTTACCATTAGCTTT 7 165 0 GGATCCTTAC 0.855815 -126 TCCGGCTCTTCCCTTACAGCCCTTACT 11 128 0 GGTCCCTTAC 0.985359 -17 TAAAATCTGAGCGAGTTCTCTTATAGAGGACGGA 14 120 0 GCTCTCTTAT 0.734205 -181 ACAGGTTTTAGGTTTTTCCCTTCTTTTTTAAGTT 14 215 0 GGTCCCTTCT 0.950738 -86 ** * ******* Masking position 11 Map Score: 17.6455 Number of sites scoring better than the average of aligned sites = 501 Number in coding regions = 462 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 3 CCTCTCGCTTCGGCATCCTCTTTACAAACGTAC 3 166 0 CATCCTCTTT 0.798885 -109 ACTATTTTATCCGCCTCTTCTATTAGTTTAATG 3 241 0 CCTCTTCTAT 0.947421 -34 TTCTGGACGCCAAACTCCTCTTCAGGATACTCT 4 64 1 CCTCCTCTTC 0.926407 -237 GGTATCCTGTCCTTTTCTTCTATGAAGTACCAA 4 152 0 CTTCTTCTAT 0.851961 -149 AAGTACCTGTCTATCTCCTCTTTGTGTTTTTCC 4 242 0 CCTCCTCTTT 0.98055 -59 TCGCTTCCTCCTTTTAAGGCAAAT 6 2 1 CTCCTCCTTT 0.825167 -84 GCTTTGCGTGCTTCCGCTTCGTTTGGCACCCCC 7 222 0 CCGCTTCGTT 0.742356 -69 TAAAGTTAAACCCCCTCCTCTATTGCTTTGCGT 7 246 0 CCTCCTCTAT 0.946384 -45 CCTTCAAACTCAAACTCTTCCTTTTCTTTACCG 8 64 0 CCTCTTCCTT 0.882455 -206 TCCTCATCCACGTACTCTTCGTTAACGGCAAAC 8 169 0 CCTCTTCGTT 0.932506 -101 TAAGTTTTTCCAATTCCTTCTTTATATCGTGCA 10 67 1 CTCCTTCTTT 0.923487 -234 CTACTTTATGCAAACTCCCCTTTACTATGTCCA 11 20 1 CCTCCCCTTT 0.951723 -125 TCCCTTACAGCCCTTACTTCTTCTATTATTGAG 11 113 0 CTACTTCTTC 0.504547 -32 GTCTTAAGTCCTTGTCCCCCTTTTAAAAATAAA 13 133 1 CTCCCCCTTT 0.82217 -36 GGTTTTAGGTTTTTCCCTTCTTTTTTAAGTTCA 14 213 0 TCCCTTCTTT 0.66639 -88 CCCACTTTAACGATCACTTCTATTTCTTCATAT 14 255 0 CCACTTCTAT 0.817214 -46 * ********* Masking position 7 Map Score: 12.7537 Number of sites scoring better than the average of aligned sites = 857 Number in coding regions = 804 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 4 TTCCAGGGAGGGGTGGTACGTTTGTAAAGAGG 3 151 1 GGTGGTACTT 0.908495 -124 ACTCCATGGTGGGAGGGACTTTTGCGAGTTTC 4 17 0 GGAGGGACTT 0.940943 -284 AGAGGAGATAGACAGGTACTTTAAGGAAACGA 4 254 1 GAAGGTACTT 0.847106 -47 TACAATAAGGGATTGCGACATTTCTTTCTGTG 5 34 1 GATGCGACTT 0.986279 -267 GCATAACATTGATTGGGAAATTTTTTTAAATG 5 66 0 GATGGGAATT 0.966867 -235 TACAATAAGGGATTGCGACATTTCTTTCTGTG 5 101 1 GATGCGACTT 0.986279 -200 GCATAACATTGATTGGGAAATTTTTTTAAATG 5 133 0 GATGGGAATT 0.966867 -168 TACAATAAGGGATTGCGACTTTGCTTTATAAT 5 168 1 GATGCGACTT 0.986279 -133 GCATTGTCCAGCCTGCGAAGTTCGTGAACTTT 11 68 0 GCTGCGAATT 0.878773 -77 ** ****** ** Masking position 8 Map Score: 10.2127 Number of sites scoring better than the average of aligned sites = 57 Number in coding regions = 49 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185 Motif number 5 TATAAGGACCTCTTCCTTGAACTTTAATCCT 3 196 0 TCTTCCTTAA 0.830337 -79 CTCTTTGTGTTTTTCCTTCACGTACTTGATT 4 227 0 TTTTCCTTAC 0.782414 -74 AAAGAACTTCGTTTCCTTAAAGTACCTGTCT 4 263 0 GTTTCCTTAA 0.878926 -38 CATTTCTTTCTGTGCATTTAAAAAAATTTCC 5 52 1 TGTGCATTAA 0.871128 -249 CATTTCTTTCTGTGCATTTAAAAAAATTTCC 5 119 1 TGTGCATTAA 0.871128 -182 ATACTAATAATTTGCCTTAAAAGGAGGAAGC 6 13 0 TTTGCCTTAA 0.98483 -73 AGGGGTTTTAATTGCCTTTAATTTTAGCATT 6 49 0 ATTGCCTTAA 0.891911 -37 TGGTAAGGAGTGTTCCTTCCACGGTTATAGA 7 173 1 TGTTCCTTCA 0.844818 -118 GCTCAGATACGGTGCCTTCAAACTCAAACTC 8 80 0 GGTGCCTTAA 0.948759 -190 CTCCGTTAAGTTTGCCGTTAACGAAGAGTAC 8 160 1 TTTGCCGTAA 0.911047 -110 AAAGTAATATTTTACCTTAAAATTTATTAAT 9 12 0 TTTACCTTAA 0.86404 -24 TCGTGCAACATTTGCCTTACATCAATAAGCC 10 93 1 TTTGCCTTCA 0.953521 -208 GTTCGTGAACTTTGCCTTCAGGTGTTTATGG 11 50 0 TTTGCCTTAG 0.917686 -95 ******** ** Masking position 8 Map Score: 9.21901 Number of sites scoring better than the average of aligned sites = 332 Number in coding regions = 308 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 6 GATACTCTCCGACCCTAACTTTGACCTGAGTG 4 89 1 GACCTAACTT 0.893747 -212 CTTATTGTAAGGGCATAACCCTGCACGCTTGT 5 11 0 GGGCTAACCT 0.980137 -290 CTTATTGTAAGGGCATAACATTGATTGGGAAA 5 78 0 GGGCTAACTT 0.993804 -223 CTTATTGTAAGGGCATAACATTGATTGGGAAA 5 145 0 GGGCTAACTT 0.993804 -156 CTTACTGTTAGGGCGTAACGTATGCCTTATCG 5 210 0 GGGCTAACTA 0.970844 -91 ATAGAGGAGGGGGTTTAACTTTATACCTTTTT 7 256 1 GGGTTAACTT 0.977655 -35 ATACATATTCGAGTTTAACATTTTTTCCGG 14 9 0 GAGTTAACTT 0.922694 -292 **** **** ** Masking position 7 Map Score: 7.72007 Number of sites scoring better than the average of aligned sites = 17 Number in coding regions = 10 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 7 TCCTTTTCTTCTATGAAGTACCAAAGAGCT 4 146 0 CTATGAAGTA 0.88913 -155 AAGTAATTAGCTATAAAGAACTTCGTTTCC 4 278 0 CTATAAAGAA 0.970197 -23 ATGTTGCACGATATAAAGAAGGAATTGGAA 10 74 0 ATATAAAGAA 0.92714 -227 ATAAGCCAGTATATAAAGTAAACAACAAAA 10 117 1 ATATAAAGTA 0.823274 -184 ATAAGACTTACTATAAAGACAAAAACAAAA 10 156 1 CTATAAAGAC 0.948545 -145 GGTTAAAGGACTATTAAGAAATACTTATGA 13 36 1 CTATTAAGAA 0.889263 -133 ACAAAAACGTCTATAAAGACGTAATTTTAC 14 164 1 CTATAAAGAC 0.948545 -137 CTGTGGTGCCATATGAAGAAATAGAAGTGA 14 245 1 ATATGAAGAA 0.895429 -56 ********** Masking position 6 Map Score: 6.57942 Number of sites scoring better than the average of aligned sites = 77 Number in coding regions = 69 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 8 AGAGGTCCTTATAAGCTACAAAGATATCAT 3 214 1 ATAAGCTACA 0.723467 -61 TAGTATATCAAAATGCTAAAATTAAAGGCA 6 38 1 AAATGCTAAA 0.92905 -48 AGAAAGGCTAAAAAACAAAGGG 10 3 1 AAAGGCTAAA 0.884806 -298 AGTAAACAACAAAAGCTAAATAAATAAGAC 10 133 1 AAAAGCTAAA 0.966576 -168 CAGCTACAGAAAAAGCTAGATCGTTTGGTG 10 198 0 AAAAGCTAGA 0.884806 -103 ATTGAAAAAGATAAGCTAAGCCTAA 12 6 1 AAAAGATAAG 0.699166 -31 CAAGTATAAAAGATACAGGACAAAGGG 13 8 1 AAAAGATACA 0.897823 -161 TAATTTTCAAAAATGATAAAATGGTAAATT 13 81 1 AAATGATAAA 0.848212 -88 CCGGAAAAAATGTTAAACTCGAATATG 14 8 1 AAATGTTAAA 0.629422 -293 CCACTGAATTAAAAGATACATATTCGAGTT 14 26 0 AAAAGATACA 0.897823 -275 AAAGAAGGGAAAAACCTAAAACCTGTGGTG 14 223 1 AAAACCTAAA 0.771541 -78 ********** Masking position 3 Map Score: 6.1926 Number of sites scoring better than the average of aligned sites = 225 Number in coding regions = 204 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 9 CATGGTAAAATTCTACCAAGGGGTGGATAAAG 3 12 0 TTTCCAAGGG 0.944641 -263 CTTGGTAGAATTTTACCATGGGTGTTAAAACG 3 24 1 TTTCCATGGG 0.777048 -251 GGTGGTACGTTTGTAAAGAGGATGCCGAAGCG 3 162 1 TTTAAGAGGA 0.702468 -113 TCGGAGAGTATCCTGAAGAGGAGTTTGGCGTC 4 69 0 TCTAAGAGGA 0.543033 -232 CGTCCCAGTATCCTAACATGGGAACCCAGTCG 4 185 0 TCTACATGGG 0.7119 -116 TCGCAATCCCTTATTGTAAGGGCATAACCCTG 5 20 0 TTTGTAAGGG 0.91562 -281 TCGCAATCCCTTATTGTAAGGGCATAACATTG 5 87 0 TTTGTAAGGG 0.91562 -214 TCGCAATCCCTTATTGTAAGGGCATAACATTG 5 154 0 TTTGTAAGGG 0.91562 -147 GAAGCTCCTCCTGAAAAGGGGTTTTAATTG 6 66 0 TCTAAAAGGG 0.944392 -20 TCCTGAAGTTTTTTCCAGAGGGCATCCGCATG 7 70 0 TTTCAGAGGG 0.923658 -221 ACTTAAAGATTATAAAAAGGTATAAAGTTAA 7 270 0 TTTAAAAGGT 0.726195 -21 TTATCCTTTATTTTTAAAAGGGGGACAAGGAC 13 140 0 TTTAAAAGGG 0.971149 -29 CTCGCTCAGATTTTAAAAAGGGACTACAAAAA 14 139 1 TTTAAAAGGG 0.971149 -162 ** * ******* Masking position 4 Map Score: 9.65286 Number of sites scoring better than the average of aligned sites = 323 Number in coding regions = 300 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 10 ACTTTATCCACCCCTTGGTAGA 3 2 1 CTTTATCCCC 0.934911 -273 AGCCAAAGCGTTTTAACACCCATGGTAAAAT 3 33 0 TTTTAACACC 0.921338 -242 CAGACCACTATTTTATCCGCCTCTTCTATTA 3 249 0 TTTTATCCCC 0.975175 -26 AAGGTATAAAGTTAAACCCCCTCCTCTATTG 7 254 0 GTTAAACCCC 0.872687 -37 CTCCAAGAAGTTTTAACCACCGCTAACTGGA 8 241 0 TTTTAACCCC 0.989047 -29 TTGAGCAGGATTTTAAGCCCCAGGAGAAAAG 14 61 1 TTTTAAGCCC 0.945533 -240 GGATTGTACTTTTTAACCACATCAATAATTT 14 92 0 TTTTAACCCA 0.921338 -209 ******** ** Masking position 5 Map Score: 3.08427 Number of sites scoring better than the average of aligned sites = 64 Number in coding regions = 51 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 11 ATCGTCCTCGCCGAGGTAATCCGAGGAAAAGT 3 81 0 CGAGGTATCC 0.988442 -194 GGACGGAGTCCTGAGGTACCCTTCCAGGGAGG 3 130 1 CGAGGTCCCT 0.891779 -145 AATCAGGTTTCTGACGTACTCCATGGTGGGAG 4 34 0 CGACGTCTCC 0.957356 -267 AAGTTAGGGTCGGAGAGTATCCTGAAGAGGAG 4 78 0 CGAGAGATCC 0.882235 -223 AAGTTTTTTCCAGAGGGCATCCGCATGAGGAC 7 65 0 CGAGGGATCC 0.979767 -226 AAGTTCTGGACATAGGTACTCCGGAGGGCAGG 7 122 1 CTAGGTCTCC 0.968774 -169 CTTTTCTTTACCGAGCTTCTCCCTGAGAATGG 8 45 0 CGAGCTCTCC 0.982829 -225 TTATTTTAGGCTTAGCTTATCTTTTTCAAT 12 9 0 CTAGCTATCT 0.653714 -28 * ***** **** Masking position 4 Map Score: 3.09157 Number of sites scoring better than the average of aligned sites = 159 Number in coding regions = 146 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 12 TACAAACGTACCACCCCTCCCTGGAAGGGT 3 147 0 CCACCCCTCC 0.841287 -128 TCGCAAAAGTCCCTCCCACCATGGAGTACG 4 22 1 CCCTCCCACC 0.959482 -279 TAAAATCTTCCCTTGCCTCCTCACTCAGGT 4 112 0 CCTTGCCTCC 0.980485 -189 ACGTGTTTATCCTTCGCACCCA 7 3 0 CCTTCGCACC 0.905558 -288 TGACCCAGTACCTGCCCTCCGGAGTACCTA 7 134 0 CCTGCCCTCC 0.96231 -157 TGGAAAAGTACCTTATCTCCACCATCTTAC 8 18 0 CCTTATCTCC 0.947899 -252 ATTAAAGCAACCCTATCCCCGTCGGAGATT 8 208 0 CCCTATCCCC 0.873937 -62 AGTCTTAAGTCCTTGTCCCCCTTTTAAAAA 13 132 1 CCTTGTCCCC 0.929656 -37 GGTCTTTACCTCCGAGAAATTTA 15 15 0 CTTTACCTCC 0.820237 -13 ********** Masking position 7 Map Score: 4.67237 Number of sites scoring better than the average of aligned sites = 275 Number in coding regions = 241 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 13 AGAGTATACGTGAGAAAATAGTTTTT 2 9 1 CGTGAGAAAA 0.986207 -18 CGCTTTGGCTCGTGAGGAAACTGGGAGACT 3 54 1 CGTGAGGAAA 0.969888 -221 CCATGGAGTACGTCAGAAACCTGATTCTGG 4 40 1 CGTCAGAAAC 0.923167 -261 AGTAAGGGATCGTGATAAAATTTCCCCAAA 5 236 1 CGTGATAAAA 0.931976 -65 TTAATATAGTCGTTAGAAAAAGCACAAATA 5 274 0 CGTTAGAAAA 0.947356 -27 ********** Masking position 5 Map Score: 0.967371 Number of sites scoring better than the average of aligned sites = 13 Number in coding regions = 11 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185 Motif number 14 GCGAGGACGATGTAGTGGTTTTGATTCAGG 3 102 1 TGTAGTGGTT 0.903488 -173 AGGCGGATAAAATAGTGGTCTGGTAAT 3 258 1 AATAGTGGTC 0.855743 -17 TTGATTACCTTGTAGTCGTCCCAGTATCCT 4 203 0 TGTAGTCGTC 0.93722 -98 AGAATATTAATATAGTCGTTAGAAAAAGCA 5 280 0 TATAGTCGTT 0.964153 -21 TCGGAGATTTTATAGTCCTCATCCACGTAC 8 187 0 TATAGTCCTC 0.903169 -83 TATTTGATTCTATAATGGTTATTGTAAATT 10 263 0 TATAATGGTT 0.648641 -38 AGTATTTCTTAATAGTCCTTTAACCCTTTG 13 31 0 AATAGTCCTT 0.776966 -138 ATTACGTCTTTATAGACGTTTTTGTAGTCC 14 159 0 TATAGACGTT 0.828179 -142 ********** Masking position 4 Map Score: 0.93112 Number of sites scoring better than the average of aligned sites = 97 Number in coding regions = 91 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 AAGGACCTCTTCCTTGAACTTTAATCCTCTCG 3 192 0 TCCTGAATTT 0.981006 -83 GGTTTTAATTGCCTTTAATTTTAGCATTTTGA 6 45 0 GCCTTAATTT 0.798178 -41 AGCCGTATTCTTCCTGAAGTTTTTTCCAGAGG 7 81 0 TTCTGAATTT 0.944218 -210 TATATTGAACTCCGTTAAGTTTGCCGTTAACG 8 151 1 TCCTTAATTT 0.944218 -119 CCTTCCACCTCCAAGAAGTTTTAACCACCGC 8 249 0 TCCAGAATTT 0.942266 -21 GCCTGCGAAGTTCGTGAACTTTGCCTTCAGGT 11 58 0 TTCTGAATTT 0.944218 -87 AAGAGAATTATCCTTTATTTTTAAAAGGGGGA 13 147 0 TCCTTATTTT 0.7274 -22 AAAGCAGGATTTCTTGAACTTAAAAAAGAAGG 14 199 1 TTCTGAATTA 0.7274 -102 GGTCTTTACCTCCGAGAAATTTAAATT 15 6 0 TCCAGAATTT 0.942266 -22 *** **** *** Masking position 7 Map Score: 6.33009 Number of sites scoring better than the average of aligned sites = 219 Number in coding regions = 198 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295