AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i057_synecho_ctra_100.orf -o057_synecho_ctra_100.ace -a/home/amcguire/genomes/ORF_synecho.txt -z/home/amcguire/genomes/synecho.fna -g0.46 -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 = 0.46 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 RCY32311 191 Synechocystis #2 RCY35515 195 Synechocystis #3 RCY16212 29 Synechocystis #4 RCY27781 300 Synechocystis #5 RCY37253 206 Synechocystis #6 RCY26284 300 Synechocystis #7 RCY23327 241 Synechocystis #8 RCY31626 279 Synechocystis #9 RCT00348 169 Chlamydia_trachomatis #10 RCT00363 300 Chlamydia_trachomatis Motif number 1 GTTCAACGTCTTTCCCTCCAATGGTAATGGTGATTCCCGA 1 27 1 TTTCCCGGGG 0.990399 -165 CCGAAGCCAATTTGCCCCCTAGGGTTCGGCAACGCATCGG 1 112 0 TTTCCCGGGC 0.987336 -80 TAACGAAATTATTTTGACCAACAGGACTGGGCAATTATTA 2 62 0 ATTGCCAGGG 0.959464 -134 CCGCATTTACTGTCAGACCTTTAGCTAAGCTTTTAACCCT 2 131 1 TGTGCCAGGC 0.947865 -65 AAAGCACCGATTTTTCCCTTCTGGAAGTGGTTGGAACA 4 9 0 TTTCCTGGGG 0.880979 -292 GGAAATTTATTTTTAGCCCATGGGAACAGCCTAACACAAT 4 93 0 TTTGCCGGGC 0.993206 -208 CTGCCGGGGGGTTTGTCCCAACGGTTGTGGCTATCACGTT 4 187 1 GTTTCCGGGG 0.970237 -114 TTCAGTTTTAGTTATTCCGTCCGGGTTCGGTTAGACATCA 4 250 1 GTTTCGGGGG 0.864494 -51 AATTGACTAGTTTTTGCCCCCAAGAACTGGTTAAGGTGCC 6 11 1 TTTGCCAGGG 0.981229 -290 AGCAGAATTCGGTCAGCCCTGGGGAAAAGCCTGGCAACCC 6 71 1 GGTGCCGGGC 0.976235 -230 GAGGAACAAAATTATGGCCGCTGGTGTAGGCATTTTTATT 6 218 0 ATTGCCGGGG 0.989166 -83 GTATTTCATTGGTTTGGCCTCTGGTCTGGCAATGGTTGCT 7 56 1 GGTGCCGGGC 0.984982 -186 CCCCGCCAAATTTTCCTCGGTTAGTCAAGGAAGTAAAAAA 7 155 0 TTTCCGAGGG 0.839585 -87 TAAAGGAAAAATTTCGTCCAGAGGATTTGCGGCCAACGGC 8 94 0 ATTGCCGGGC 0.985716 -186 *** * ** ** ** Masking position 3 Map Score: 23.167 Number of sites scoring better than the average of aligned sites = 797 Number in coding regions = 728 Number in noncoding regions = 69 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 2 TGGTCAATAATAATTGCCCAGTCCTGTTGGTCAAAATAATTTC 2 55 1 TTCCTCCGGA 0.992649 -141 CTTTTAACCCTCCCTGTCCCAACCTATCGAATAGAGGAAGTTT 2 160 1 TCTCACCGAA 0.769238 -36 TGTTCCAACCACTTCCAGAAGGGAAAAATCGGTGC 4 3 1 TCCCTCCGGA 0.987658 -298 GATCCACCGATTTTGGGCCAATCCCAACGATAAAGCACCGATT 4 37 0 TTGCTCCGAA 0.982864 -264 GAAAAAATTGTGTTAGGCTGTTCCCATGGGCTAAAAATAAATT 4 87 1 TTGCTCCGGA 0.994407 -214 CAGTCTAACGTGATAGCCACAACCGTTGGGACAAACCCCCCGG 4 190 0 TTCCACCGGA 0.967022 -111 TGGGTTGGGTTGCCAGGCTTTTCCCCAGGGCTGACCGAATTCT 6 74 0 TCGCTCCGGG 0.980464 -227 TTTTGCCCCACTCCTTGGAAAAATTACCAGCTA 8 1 1 TTCCTCCAAA 0.854205 -279 CGGCGGGAATTTGTGATCATCTCCCACAGGGCGGCATTGTACA 8 55 0 TTTCTCCGGG 0.978584 -225 ATTCCCGCCGTTGGCCGCAAATCCTCTGGACGAAATTTTTCCT 8 88 1 TGGCTCCGAA 0.922852 -192 CTCATCAGCATATTCAGCTCTTCCTTTGAGTAGTTTCCTACAA 10 54 0 TTGCTCCAGG 0.919086 -247 CGTTTAATGATGCTATTCTGATCCGTTAGGCAACTGTTTAATA 10 144 0 TTTCTCCGGA 0.989072 -157 ATCTTTCTATTTCTTTTCTCTTCCCTGTGTGTATGATTTGCTG 10 230 1 TTTCTCCGTA 0.898719 -71 * * ** *** ** * Masking position 1 Map Score: 14.5527 Number of sites scoring better than the average of aligned sites = 397 Number in coding regions = 368 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 3 GCCGATGCGTTGCCGAACCCTAGGGGGCAAATTGGC 1 111 1 TCCACCGGGG 0.945402 -81 TGTTCCAACCACTTCCAGAAGGGAAAAATCGG 4 7 1 ACCTCCAAGG 0.943111 -294 AAATTGTGTTAGGCTGTTCCCATGGGCTAAAAATAA 4 91 1 AGCTCCTGGG 0.968573 -210 TTTGAACTGGAATCACTGCCGGGGGGTTTGTCCCAA 4 172 1 ATCTCCGGGG 0.986273 -129 CTAACGTGATAGCCACAACCGTTGGGACAAACCCCC 4 193 0 ACCACCTGGG 0.977968 -108 GATGATGTCTAACCGAACCCGGACGGAATAACTAAA 4 256 0 ACCACCACGG 0.976792 -45 TTGGCACCTTAACCAGTTCTTGGGGGCAAAAACTAG 6 17 0 ACCTCTGGGG 0.943731 -284 TTGGGTTGCCAGGCTTTTCCCCAGGGCTGACCGAAT 6 77 0 AGCTCCAGGG 0.988261 -224 ACCAATAAAAATGCCTACACCAGCGGCCATAATTTT 6 215 1 AGCAACGCGG 0.760226 -86 GGCAAGCAGAACTAATTTCCATGGGGAATAATGGTA 7 23 1 ATATCCGGGG 0.93466 -219 GGAATTTGTGATCATCTCCCACAGGGCGGCATTGTA 8 57 0 ACATCCAGGG 0.974212 -223 TCTGATATTAAACAGTTGCCTAACGGATCAGAATAG 10 139 1 ACATCCACGG 0.929145 -162 ATGAACAGCAAATCATACACACAGGGAAGAGAAAAG 10 242 0 ATCAACAGGG 0.812334 -59 * ** * ** **** Masking position 15 Map Score: 12.2837 Number of sites scoring better than the average of aligned sites = 1284 Number in coding regions = 1134 Number in noncoding regions = 150 Number of orfs with sites within 600 bp upstream = 159 Fraction of orfs with sites within 600 bp upstream = 0.0255381 Motif number 4 AGGGAAAGACGTTGAACTTGTTTAATCGCCAT 1 12 0 GTTACTTGTT 0.96027 -180 TTGACCAATTGTTAACTTTGTTAACGAAAATT 2 30 0 GTTCTTTGTT 0.971001 -166 CATCACAGGAGTCGTCCTTGGTA 4 288 1 GTCCCTTGGT 0.962695 -13 TTTACTTTCTGTTCACTTTTTTTGGAAGCTAA 5 54 1 GTTCTTTTTT 0.837622 -153 AGACTGGTCAGTCAGCATTGGTTATTTT 5 189 1 GTCCATTGGT 0.87562 -18 TTTTACCGGGGTCACCCTTGGTCTGCTTTACG 6 172 0 GTCCCTTGGT 0.962695 -129 TGATAAAAACGTTGTAATTGTTTGCTATTGTA 6 262 1 GTTAATTGTT 0.868306 -39 AGGGAAATAAGTTCTATTTTTTTGTTATGAAA 9 65 0 GTTATTTTTT 0.654604 -105 GGCGTTATGTGTTTAACTTGTAGTTTGCTTTG 10 19 1 GTTACTTGTA 0.754362 -282 TTAACTTGTAGTTTGCTTTGTTATTGTAGGAA 10 31 1 GTTCTTTGTT 0.971001 -270 TAGATTTGTTTTCCTTGTTTCTTCTCTTA 10 282 0 GTTCCTTGTT 0.985027 -19 *** ******* Masking position 8 Map Score: 10.1563 Number of sites scoring better than the average of aligned sites = 222 Number in coding regions = 179 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 5 TGTTCCAACCACTTCCAGAAGGGAAAAA 4 4 1 TCAACCCCAG 0.993577 -297 TGATTCCAGTTCAAACCTTATTCGGCCAAGGCTCA 4 152 0 TCAACCTCGG 0.964779 -149 AGGTTTGAACTGGAATCACTGCCGGGGGGTTTGTC 4 169 1 TGAATCCCGG 0.943953 -132 TGTGATGATGTCTAACCGAACCCGGACGGAATAAC 4 260 0 TCAACCCCGG 0.995941 -41 TGCCGGAATTTGGCACCTTAACCAGTTCTTGGGGG 6 27 0 TGCACCCCAG 0.961913 -274 GAATTCTGCTTCAAACCATTGCCGGAATTTGGCAC 6 46 0 TCAACCCCGG 0.995941 -255 AGCCTGGCAACCCAACCCAGACCAGTTCTCAGTTA 6 98 1 CCAACCCCAG 0.979424 -203 GCGATCGCCTAGCAACCATTGCCAGACCAGAGGCC 7 71 0 AGAACCCCAG 0.951785 -171 ** **** **** Masking position 5 Map Score: 9.31456 Number of sites scoring better than the average of aligned sites = 129 Number in coding regions = 117 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 6 AAAGCACCGATTTTTCCCTTCTGGAAGTGG 4 19 0 TTTTTCCCTT 0.895078 -282 ACTGACCAGTCTCTTATTTTAAGTATTTTT 5 171 0 CTCTTATTTT 0.713171 -36 CTGGACGAAATTTTTCCTTTAACCACAAAG 8 113 1 TTTTTCCTTT 0.769299 -167 GCATATTCAGCTCTTCCTTTGAGTAGTTTC 10 60 0 CTCTTCCTTT 0.956187 -241 ATTAAACGTTCTCTTCTCTTCAAGAGAAGA 10 179 1 CTCTTCTCTT 0.982747 -122 AAAAAACGCCCTCTTCTCTTGAAGAGAAGA 10 190 0 CTCTTCTCTT 0.982747 -111 CTTTCTATTTCTTTTCTCTTCCCTGTGTGT 10 232 1 CTTTTCTCTT 0.957018 -69 TTTTCCTTGTTTCTTCTCTTAACTCATGAA 10 273 0 TTCTTCTCTT 0.957018 -28 ********** Masking position 5 Map Score: 7.97505 Number of sites scoring better than the average of aligned sites = 95 Number in coding regions = 76 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 7 ATAATTTAAGCTAGGGAACGCCGATGCGTTGCCGAA 1 92 1 CTGGAGCGAG 0.932229 -100 AATTTGCCCCCTAGGGTTCGGCAACGCATCGGCGTT 1 108 0 CTGGTGCAAG 0.99443 -84 GGGCTGTTTGGTTTAGTATGACAACG 3 14 1 GTAGTGCAAG 0.894758 -16 CCAGTTCAAACCTTATTCGGCCAAGGCTCAGAATGT 4 146 0 CCATTGCAAG 0.933027 -155 GGTTAAGGTGCCAAATTCCGGCAATGGTTTGAAGCA 6 39 1 CCATTGCAAG 0.936847 -262 GCTTTACGGTCTGCGGTTTGTCAAGCTGATCTAACC 6 144 0 CTGGTGCAAC 0.962873 -157 TTGGTTTGGCCTCTGGTCTGGCAATGGTTGCTAGGC 7 64 1 CTGGTGCAAG 0.994423 -178 AACATCGTTACCATGGTCAGTGGAAGGGCGACAGTT 7 121 0 CCGGTGGGAG 0.942279 -121 GCCAAATTTTCCTCGGTTAGTCAAGGAAGTAAAAAA 7 155 0 CCGGTGCAAG 0.993399 -87 ** *** * *** * Masking position 14 Map Score: 6.41525 Number of sites scoring better than the average of aligned sites = 314 Number in coding regions = 275 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 8 GTTGAAAAATAGTGAACAGTAATTGGATGT 1 156 0 AGTGAACAGT 0.946487 -36 GGCAATTATTATTGACCAATTGTTAACTTT 2 43 0 ATTGACCAAT 0.851841 -153 GTCAATAATAATTGCCCAGTCCTGTTGGTC 2 57 1 ATTGCCCAGT 0.933112 -139 CTGTGACTTTATTGAACAGATTCAGTTTTA 4 230 1 ATTGAACAGA 0.908864 -71 TTCCAAAAAAAGTGAACAGAAAGTAAATGA 5 51 0 AGTGAACAGA 0.849674 -156 ACCAATGCTGACTGACCAGTCTCTTATTTT 5 181 0 ACTGACCAGT 0.926719 -26 AATTGACTAGTTTTTGCCCCC 6 2 1 ATTGACTAGT 0.85842 -299 AATTTGGCACCTTAACCAGTTCTTGGGGGC 6 26 0 CTTAACCAGT 0.740628 -275 AATTTCTGATATTAAACAGTTGCCTAACGG 10 135 1 ATTAAACAGT 0.861294 -166 ********** Masking position 3 Map Score: 3.6234 Number of sites scoring better than the average of aligned sites = 388 Number in coding regions = 335 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 9 CCTAGGGGGCAAATTGGCTTCGGACTGACATCCAATTA 1 129 1 AAGGGGCTGA 0.949683 -63 TCTGACAGTAAATGCGGACTCGAAAAGCCGATGCTAAT 2 110 0 AAGGGAAAGC 0.98283 -86 AGATAAAAATAAACGGGCCAAGGAAATATCCTAGCCCG 5 120 0 AAGGGGAATA 0.923882 -87 TATTTTTTGGAACGAGGCATAGATAAAAATAAACGGGC 5 140 0 AAGGGAAAAA 0.83818 -67 CAATGGTTTGAAGCAGAATTCGGTCAGCCCTGGGGAAA 6 60 1 AAGAGGCAGC 0.926988 -241 AGTTAACCTGAAGATGGGTTAGATCAGCTTGACAAACC 6 128 1 AAGGGACAGC 0.984131 -173 AAAAGCGGTGCCGGCAAGCAGAACTAATT 7 2 1 AAGGGGAAGC 0.9926 -240 AACCGAGGAAAATTTGGCGGGGGGCAGAAATGCCAATA 7 173 1 AAGGGGCAGA 0.9926 -69 GGAGGGGACAAATTAGGGGCAGGGAAGACCAAGCTAAA 7 214 0 AAGGGGAAGA 0.991988 -28 AAATCATACACACAGGGAAGAGAAAAGAAATAGAAAGA 10 231 0 CAGGGAAAGA 0.916797 -70 ** ** ** **** Masking position 2 Map Score: 8.45298 Number of sites scoring better than the average of aligned sites = 246 Number in coding regions = 218 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 10 CTAAAAATAAATTTCCCTAGCCCCCTCATA 4 117 1 ATTTCCCTAG 0.955471 -184 GGGCTAGGATATTTCCTTGGCCCGTTTATT 5 121 1 ATTTCCTTGG 0.974252 -86 AGCAGAACTAATTTCCATGGGGAATAATGG 7 27 1 ATTTCCATGG 0.955471 -215 GAATAATGGTATTTCATTGGTTTGGCCTCT 7 48 1 ATTTCATTGG 0.854089 -194 CCCCCGCCAAATTTTCCTCGGTTAGTCAAG 7 166 0 ATTTTCCTCG 0.90054 -76 AATAGAACTTATTTCCCTCGTATGATCTTA 9 79 1 ATTTCCCTCG 0.983201 -91 ********** Masking position 4 Map Score: 3.28851 Number of sites scoring better than the average of aligned sites = 277 Number in coding regions = 248 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 11 AACTCAGAATTTGTAAATTTTCGTTAACAA 2 15 1 TTGTAAATTT 0.872286 -181 TATTGACCAATTGTTAACTTTGTTAACGAA 2 34 0 TTGTTAACTT 0.700263 -162 CCGATGCTAATGCTAATTTTAACGAAATTA 2 91 0 TGCTAATTTT 0.583819 -105 CAGTCAGCATTGGTTATTTT 5 197 1 TGGTTATTTT 0.94069 -10 GCATTTTTATTGGTTATATTGCTGTTTTTA 6 199 0 TGGTTATATT 0.714308 -102 GATAAAAACGTTGTAATTGTTTGCTATTGT 6 263 1 TTGTAATTGT 0.811305 -38 GGGCGACAGTTTGTTAATTTCAACAGGCGA 7 102 0 TTGTTAATTT 0.909085 -140 GATAATTAGCTGGTAATTTTTCCAAGGAGT 8 20 0 TGGTAATTTT 0.915493 -260 GGGGAGCAATTGTTAATTTAAATGGAGCC 8 261 0 TTGTTAATTT 0.909085 -19 GTAGTTTGCTTTGTTATTGTAGGAAACTAC 10 38 1 TTGTTATTGT 0.862914 -263 ********** Masking position 6 Map Score: 4.62092 Number of sites scoring better than the average of aligned sites = 301 Number in coding regions = 236 Number in noncoding regions = 65 Number of orfs with sites within 600 bp upstream = 73 Fraction of orfs with sites within 600 bp upstream = 0.011725 Motif number 12 ATTTTGACCAACAGGACTGGGCAATTATTAT 2 61 0 AAGGACTGGG 0.749763 -135 ATTCGATAGGTTGGGACAGGGAGGGTTAAAA 2 161 0 TGGGACAGGG 0.982706 -35 ACACAATTTTTTCGGACAGAGATCCACCGAT 4 69 0 TCGGACAGAG 0.86386 -232 AGAATGTATGAGGGGGCTAGGGAAATTTATT 4 122 0 AGGGGCTAGG 0.950242 -179 TCAAACCTTATTCGGCCAAGGCTCAGAATGT 4 146 0 TCGGCCAAGG 0.985795 -155 TAATTTCTTTTTCGGGCTAGGATATTTCCTT 5 108 1 TCGGGCTAGG 0.973266 -99 ATAAAAATAAACGGGCCAAGGAAATATCCTA 5 125 0 AGGGCCAAGG 0.973266 -82 GGGGACAAATTAGGGGCAGGGAAGACCAAGC 7 218 0 TGGGGCAGGG 0.988932 -24 CCAGAGGATTTGCGGCCAACGGCGGGAATTT 8 86 0 TCGGCCAACG 0.919913 -194 * ********* Masking position 7 Map Score: 6.24063 Number of sites scoring better than the average of aligned sites = 1157 Number in coding regions = 1038 Number in noncoding regions = 119 Number of orfs with sites within 600 bp upstream = 125 Fraction of orfs with sites within 600 bp upstream = 0.0200771 Motif number 13 ATGCGGACTCGAAAAGCCGATGCTAATGCT 2 107 0 GAAAAGCCGA 0.96772 -89 CAGGGAGGGTTAAAAGCTTAGCTAAAGGTC 2 146 0 TAAAAGCTTA 0.690874 -50 TAGCCCATGGGAACAGCCTAACACAATTTT 4 90 0 GAACAGCCTA 0.960527 -211 CAGCCCTGGGGAAAAGCCTGGCAACCCAAC 6 84 1 GAAAAGCCTG 0.946455 -217 GCGGGGGGCAGAAATGCCAATACAATTTAG 7 189 1 GAAATGCCAA 0.814055 -53 GGTTAAAAATGAATAGCTAATGTAGTCTTC 9 132 0 GAATAGCTAA 0.812011 -38 CTACTCAAAGGAAGAGCTGAATATGCTGAT 10 64 1 GAAGAGCTGA 0.873592 -237 AGCGTCGTAAGAAAAGCTTGAAATAGCGCC 10 96 0 GAAAAGCTTG 0.917654 -205 CTTAACTCATGAACAGCAAATCATACACAC 10 256 0 GAACAGCAAA 0.781707 -45 ********** Masking position 3 Map Score: 1.43986 Number of sites scoring better than the average of aligned sites = 239 Number in coding regions = 188 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 14 TTCGGGAATCACCATTACCATTGGAGGGAAAGA 1 35 0 ACATTACATG 0.957042 -157 CGTTAAAATTAGCATTAGCATCGGCTTTTCGAG 2 97 1 ACATTACATG 0.957042 -99 TCGGTGCTTTATCGTTGGGATTGGCCCAAAATC 4 39 1 ACGTTGGATG 0.967153 -262 CTTTGATAAAAACGTTGTAATTGTTTGCTATTG 6 259 1 ACGTTGAATG 0.952076 -42 AGTAAAAAACATCGTTACCATGGTCAGTGGAAG 7 131 0 ACGTTACATG 0.98506 -111 GTTAGAGTACATCGTTGACATCGATGGGGTCAC 8 188 0 ACGTTGCATG 0.990447 -92 * ***** *** * Masking position 6 Map Score: 2.91818 Number of sites scoring better than the average of aligned sites = 45 Number in coding regions = 36 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 15 AAATAATTTCGTTAAAATTAGCATTAGCAT 2 88 1 GTTAAAATTA 0.623535 -108 CTTCCAGAAGGGAAAAATCGGTGCTTTATC 4 22 1 GGAAAAATCG 0.612173 -279 GTTCCCATGGGCTAAAAATAAATTTCCCTA 4 106 1 GCTAAAAATA 0.728565 -195 ACGAGGCATAGATAAAAATAAACGGGCCAA 5 137 0 GATAAAAATA 0.820657 -70 GGGTGACCCCGGTAAAAACAGCAATATAAC 6 187 1 GGTAAAAACA 0.920477 -114 TCCTCGCTTTGATAAAAACGTTGTAATTGT 6 253 1 GATAAAAACG 0.920741 -48 AGTCAAGGAAGTAAAAAACATCGTTACCAT 7 143 0 GTAAAAAACA 0.863426 -99 TTCTAAAAAGGTTAAAAATGAATAGCTAAT 9 141 0 GTTAAAAATG 0.865868 -29 CAAACTACAAGTTAAACACATAACGCCTTG 10 16 0 GTTAAACACA 0.744359 -285 ATTTTTCAATGAAAAAAACGCCCTCTTCTC 10 202 0 GAAAAAAACG 0.84026 -99 ********** Masking position 5 Map Score: 1.19719 Number of sites scoring better than the average of aligned sites = 344 Number in coding regions = 274 Number in noncoding regions = 70 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069