AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00970_synecho_reg_100.orf -o00970_synecho_100.ace -a/home/amcguire/alignace/lib/ORF_synecho.txt -z/skink1/amcguire/genomes/synecho.fna -g0.48 -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 = 0.48 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 slr1031 187 tyrS; tyrosyl-tRNA synthetase (tyrosine--tRNA ligase) (tyrRS). #2 ssr1720 153 tyrS; tyrosyl tRNA synthetase. [EC:6.1.1.1] #3 slr1703 231 serS; seryl-tRNA synthetase (serine--tRNA ligase) (serRS). #4 sll1074 124 leuS; leucyl-tRNA synthetase (leucine--tRNA ligase) (leuRS). #5 slr1550 42 lysS; lysyl-tRNA synthetase (lysine--tRNA ligase) (lysRS). #6 sll1457 203 rfbJ; RfbJ protein. #7 sll1362 193 ileS; isoleucyl-tRNA synthetase (isoleucine--tRNA ligase) (ileRS). #8 slr1884 150 trpS; tryptophanyl-tRNA synthetase (tryptophan--tRNA ligase) #9 slr1720 25 aspS; aspartyl-tRNA synthetase (aspartate--tRNA ligase) (aspRS). #10 slr1721 102 hypothetical protein. #11 sll1425 168 proS; proline-tRNA ligase. [EC:6.1.1.15] [SP:SYP_SYNY3] #12 sll1553 283 pheT; phenylalanyl-tRNA synthetase beta chain (phenylalanine--tRNA #13 slr0958 30 cysS; cysteinyl-tRNA synthetase (cysteine--tRNA ligase) (cysRS). #14 sll0905 87 maf; MAF. #15 slr0959 112 hypothetical protein. #16 sll0362 180 alaS; alanyl-tRNA synthetase (alanine--tRNA ligase) (alaRS). #17 sll0310 77 rimI; ribosomal-protein-alanine acetyltransferase. [EC:2.3.1.128] #18 sll0309 299 hypothetical protein. #19 slr0220 175 glyS; glycyl-tRNA synthetase beta chain (glycine--tRNA ligase beta #20 slr0070 35 fmt; methionyl-tRNA formyltransferase. [EC:2.1.2.9] #21 slr0468 164 hypothetical protein. [EC:3.1.21.3] #22 sll0454 202 pheS; phenylalanyl-tRNA synthetase alpha chain (phenylalanine--tRNA #23 slr0638 49 glyQ; glycyl-tRNA synthetase alpha subunit (glycine--tRNA ligase). #24 slr0639 214 hypothetical 33.2 kD protein slr0639. [SP:Y639_SYNY3] #25 slr0649 145 metS; methionyl-tRNA synthetase (methionine--tRNA ligase) (metRS). #26 sll0179 169 gltX; glutamyl-tRNA synthetase (glutamate--tRNA ligase) (gluRS). #27 sll0078 171 thrS; threonyl-tRNA synthetase (threonine--tRNA ligase) (thrRS). #28 sll0502 197 argS; arginyl-tRNA synthetase (arginine--tRNA ligase) (argRS). #29 sll0495 39 asnS; probable asparaginyl-tRNA synthetase (asparagine--tRNA ligase) #30 tRNA-Thr-3 210 tRNA-Thr. #31 slr0557 221 valS; valyl-tRNA synthetase (valine--tRNA ligase) (valRS). #32 slr1560 77 hiss2; probable histidyl-tRNA synthetase 2 (histidine--tRNA ligase #33 slr1562 30 probable glutaredoxin slr1562. [SP:GLR1_SYNY3] #34 slr1563 300 hypothetical protein. Motif number 1 GTCGGCGATCGAGGTAGAATTGGGGCGAACTGA 2 98 0 GAGGTAATGG 0.858451 -56 CAAACTTGCAGAGGGACAACCGGCCAGATAAAA 6 52 1 GAGGGAACGG 0.936447 -152 GTATAATTCCAAGGGATAATCGTCTATCAACCT 7 36 0 AAGGGAATGT 0.766671 -158 CTAGGAAAACGGGGTAAAATCAGCAAGTATTCC 7 145 1 GGGGTAATAG 0.880579 -49 AGTGGCTTGGGGCAGAATTGTGCATAGGAAT 7 173 0 GGGGCAATGT 0.953845 -21 GCCCGTCATCGGGGCACCAGGAGCCGTGTTAGG 8 127 0 GGGGCAAGAG 0.888777 -24 TAGCTGAATTAAGGGATTCTCGGCGCAGTCATT 11 130 1 AAGGGACTGG 0.645347 -39 TAAATTTTCCGAGGGTTGATGGGATGGGGAAGG 12 73 1 GAGGGTATGG 0.825209 -211 CCTGGCCAAAAGGGGGCGATGGGTT 14 3 0 AGGGGGATGG 0.967475 -85 TGCTCCCCGAGGGGGATAACCGGCCTGGCCAAA 14 26 0 GGGGGAACGG 0.987765 -62 ACCACAGGTTAGGGGGCTAGAGGAAAATTCGGC 15 38 1 AGGGGGAGGG 0.932234 -75 TTTCAAAATCAGGGCACTATCAGCAT 15 97 1 AGGGCAATAG 0.844243 -16 CAACTATTTAAGGGGTTAATTGTAGCCGTTTTG 18 236 1 AGGGGTATGT 0.68291 -64 CTCCAATTTGGGGGGAAACTGAGTGAAAGTCCC 19 127 0 GGGGGACTAG 0.87582 -49 CTTGGACAATGGGGTATAATGGGACGTTTGGGA 21 39 0 GGGGTAATGG 0.970785 -126 GCTCTCTGCTGGGGTAGAATCGGTAACGGGCGA 22 26 1 GGGGTAATGG 0.970785 -177 GTTGATCAACAGGGGATAATTGGTCTTTCCTCG 22 98 0 AGGGGAATGG 0.985472 -105 ACCAGATGGTAAGGGGAAATTGTATGGAACTTG 24 53 1 AAGGGGATGT 0.590315 -162 TGGTCTCAGTGGGGGATGATAATCGAGGGAGAA 24 133 0 GGGGGAATAT 0.927196 -82 CTGAGACCATGGGGGAAATTCAGTCATTCCCCC 24 157 1 GGGGGATTAG 0.721117 -58 AACCCAGTGGGGGGCGGGAGCGGATCAAGTATC 27 98 1 GGGGCGAGGG 0.940445 -74 GGCTTATCATGGGGCATTATTGTCCAGCCCAGC 28 127 1 GGGGCAATGT 0.953845 -71 CCCCAGAGTTGGGGGGCTAGGGGGGCTTTTAAA 31 34 0 GGGGGGAGGG 0.977705 -188 CCCAACTCTGGGGGGAACAGTGTTCAAAGTCTG 31 54 1 GGGGGAAGGT 0.963691 -168 AGGGTATTTAGGGGGCGGATTGTGGCTTTTTAA 31 110 1 GGGGGCATGT 0.852301 -112 TTGGTCTGAAGGGGCATCACAAGCTTTT 31 204 1 GGGGCAACAG 0.865795 -18 AGGGGAAAACAGGACAGGGACAA 33 1 1 AGGGGAACGG 0.962015 -30 ****** ** ** Masking position 4 Map Score: 36.5337 Number of sites scoring better than the average of aligned sites = 2439 Number in coding regions = 2136 Number in noncoding regions = 303 Number of orfs with sites within 600 bp upstream = 262 Fraction of orfs with sites within 600 bp upstream = 0.0420816 Motif number 2 CAATCCTGCCCATTCCTGCCTGATCCGTCCAGATTC 2 52 0 CACCTCCGCC 0.871942 -102 AGGTTGTCTGTTAACCATCCTAGACCAGTGACCACG 4 32 0 TTCCACCACC 0.992003 -93 CTCTGCAAGTTTGTCCAGCCAAAGCCACGATGATAA 6 29 0 TTCCACCACC 0.992003 -175 TGGAATTATACTGGCCTGCCAGAGCAGATCAAGCCA 7 58 1 CTCCTCCGCA 0.823763 -136 CTGAAGGCATTACCCCAGGCCACTCCGGGTCATGTT 12 185 0 TACCAGCACC 0.810935 -99 AGAGGAAAATTCGGCCTGCCAGCACCATTCTAGAAT 15 56 1 TCCCTCCGCC 0.97318 -57 CCTGTTATCATTTCCCTTCGGAGCCATCC 18 281 1 TTCCTCGACA 0.545462 -19 TTATACCCCATTGTCCAAGCAAAACCTAGAGATTAT 21 53 1 TTCCAGCACC 0.950356 -112 ACTTAAATTACCGCCCAGCCTGTCCCCTACACCATT 23 12 0 CCCCACCGCC 0.982922 -38 CCCAAGGATTTTTGCCACCTCGTCCCAGGACAATTA 24 16 0 TTCCACTGCC 0.947789 -199 ACAATTTCCCCTTACCATCTGGTACCCAAGGATTTT 24 40 0 CTCCACTGCC 0.909757 -175 GCAATTCCTTTCTCCCATCGTAACCCCACCACCGGA 26 37 1 TCCCACGACC 0.936613 -133 TTCCGGGCGGTTATCCATCCTAACCCAAAGCTTTGC 26 114 0 TTCCACCACC 0.992003 -56 TGGGGCATTATTGTCCAGCCCAGCCCTTAGTTTTTG 28 136 1 TTCCACCACC 0.992003 -62 ATAAAAACTTTCTGCCAACCGATGCCCTAGGCAATG 34 97 1 TCCCACCACC 0.987988 -204 CGCAAGCTAGTTGCCCAGCCAGAGCAGGGGAGAGGA 34 169 0 TTCCACCGCA 0.960062 -132 ** *** ** * ** Masking position 6 Map Score: 22.7306 Number of sites scoring better than the average of aligned sites = 604 Number in coding regions = 543 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 3 TCTCCAAGGCGATCAGCTTCTTAACT 1 172 0 CGGCGATCAG 0.990999 -16 CTACTCTCTCCGTCGGCGATCGAGGTAGAATTG 2 109 0 CGGCGATCGA 0.956209 -45 CAAGGCCGGCCCACGGCGATCGCCCTTTAGGGA 7 92 1 CGGCGATCGC 0.970027 -102 AACCCTAATCCAGTGGGGATCAGAGC 10 87 1 CGGGGATCAG 0.992242 -16 GAAAAATTATCATAGGGGAGCGGGAGCAAAATA 11 44 1 CGGGGAGCGG 0.994474 -125 CGGTTATCCCCCTCGGGGAGCATTGCCTTTGTA 14 37 1 CGGGGAGCAT 0.849275 -51 TCCGCCTTGGCGATGGCGATCGGGCAAATGGTG 18 48 1 CGGCGATCGG 0.996405 -252 TTGAAATTGACCTAGGGGGTCAGTTTTTGATT 25 124 1 CGGGGGTCAG 0.97585 -22 ACCCCACCACCGGAGGCGATCGGGTAATGGTAA 26 59 1 CGGCGATCGG 0.9964 -111 ACCTTCAACCCAGTGGGGGGCGGGAGCGGATCA 27 92 1 CGGGGGGCGG 0.982715 -80 TTCGATGGCTAAACGGCGATCGGCGATCGTTTA 30 164 0 AGGCGATCGG 0.948061 -47 CCCCCCAACTCTGGGGGGAACAGTGTTCAAAGT 31 51 1 CGGGGAACAG 0.947363 -171 ATTAGCATTGCCTAGGGCATCGGTTGGCAGAAA 34 105 0 CGGGCATCGG 0.96901 -196 * ********* Masking position 11 Map Score: 24.8813 Number of sites scoring better than the average of aligned sites = 513 Number in coding regions = 456 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 70 Fraction of orfs with sites within 600 bp upstream = 0.0112432 Motif number 4 ACCGGTCAATCCTGCCCATTCCTGCCTGAT 2 64 0 CCTGCCCATT 0.889065 -90 AGCCATCGAGTCAGTCCATTTAGTTCATTA 3 125 1 TCAGTCCATT 0.527607 -107 ATACAGGCGCTCTGACCCTTTCTCAGCTTA 6 155 1 TCTGACCCTT 0.758783 -49 TACCAAATAATCTGACCCTTTGGACGTCAG 10 46 1 TCTGACCCTT 0.758783 -57 AATAGAGTGGCCTTCCCCATCCCATCAACC 12 86 0 CCTTCCCCAT 0.878338 -198 AGGCATTACCCCAGGCCACTCCGGGTCATG 12 187 0 CCAGGCCACT 0.794716 -97 AAAAACTCACCAGTCCACTGGCGACTCAC 15 10 1 CCAGTCCACT 0.900034 -103 GAATTTTCCTCTAGCCCCCTAACCTGTGGT 15 38 0 CTAGCCCCCT 0.783614 -75 GAGTCCAAAATCTGCCCACTGCGGTGACAT 16 41 0 TCTGCCCACT 0.892739 -140 GGGGTTGGTTCCTGACCCTTTCTGACCGGA 16 102 0 CCTGACCCTT 0.897582 -79 GCAGTTTTGTTCAGCCCCCTAAATCTCTTC 19 75 1 TCAGCCCCCT 0.946288 -101 AGTATTTGATCCATCCCCATAAACAAGGCC 22 147 1 CCATCCCCAT 0.818427 -56 TACCGCCCAGCCTGTCCCCTACACCATTA 23 10 0 CCTGTCCCCT 0.979956 -40 GAAATTCAGTCATTCCCCCTAATTACTTAG 24 171 1 CATTCCCCCT 0.509461 -44 ACTTTCCCGCCTTTTCCCCTTGAAAAAATT 25 55 0 CTTTTCCCCT 0.53247 -91 CTGGTCGAAATCTGGCCCATGGGAACAGGT 27 49 0 TCTGGCCCAT 0.686968 -123 GGAATTCAGCCCTTTCCCATGATACTTGAT 27 121 0 CCTTTCCCAT 0.817839 -51 TGAAATTTCCCCATTCCACTCGGCTTGCCC 30 74 0 CCATTCCACT 0.739767 -137 AAAGCCACAATCCGCCCCCTAAATACCCTC 31 109 0 TCCGCCCCCT 0.804547 -113 TGATGCCCCTTCAGACCAATCTTTGGATCA 31 193 0 TCAGACCAAT 0.327718 -29 TTGTCTTTGTCCTTTCCCTTCAGCA 32 63 1 CCTTTCCCTT 0.842151 -15 TGGGCATCATCCTCTCCCCTGCTCTGGCTG 34 160 1 CCTCTCCCCT 0.803926 -141 ********** Masking position 10 Map Score: 15.757 Number of sites scoring better than the average of aligned sites = 2066 Number in coding regions = 1780 Number in noncoding regions = 286 Number of orfs with sites within 600 bp upstream = 262 Fraction of orfs with sites within 600 bp upstream = 0.0420816 Motif number 5 CAATATCGCAGTGCGATTTTTGGGAAAGCGTTAAACCTC 1 84 1 GGTGGAAAGC 0.93582 -104 CGAATAGAATGATCGCTTTTTGTGAAAGTTAAGAAGCTG 1 146 1 GGTGGAAAGT 0.920458 -42 AGTCCATTTAGTTCATTATTAGTGAAAGTTTGTTGGCGG 3 137 1 GATGGAAAGT 0.969527 -95 GTTGGCGGTGGGTTATCCGTTGATAAACCACCGTTTTTG 3 168 1 GATGTAAACC 0.735936 -64 GGCAGAGAGCTGGGGAAAGTGATAACTAGA 11 2 1 GATGGAAAGT 0.969527 -167 GGGAGCGGGAGCAAAATACTGGGGAAAATACAGAGCAAA 11 59 1 GATGGAAAAT 0.918482 -110 CTCTATTTTAGGCTAGTTAGTGGGAAACTTTGGTTCATT 12 109 1 GAGGGAAACT 0.922961 -175 CTGACCGGAGGTTAAACCGGAGTTAAAACTAAGCCATGG 16 72 0 GAGGTAAAAC 0.755164 -109 TCCAATTTGGGGGGAAACTGAGTGAAAGTCCCCCAGTAT 19 120 0 GAGGGAAAGT 0.971842 -56 CCATGGTCAAGGCCAACATCGGCTAAACCTAGGAAAAAT 22 58 0 GACGTAAACC 0.516825 -145 AGTGGGGGATGATAATCGAGGGAGAAAACTTAGTTATTC 24 120 0 GAGGGAAAAC 0.939029 -95 ATTTTTTCAAGGGGAAAAGGCGGGAAAGTTATAAAAATG 25 56 1 GAGGGAAAGT 0.971842 -90 CCGGTGGTGGGGTTACGATGGGAGAAAGGAATTGCCTCG 26 33 0 GAGGGAAAGG 0.878017 -137 AAGGTGTTATGATGGCTAATCGTGAAAGCAAT 29 4 0 GGTGGAAAGC 0.93582 -36 GTACGATAATGGCAACCCACAGTGAAAACCAATAGTGAT 30 122 1 GACGGAAAAC 0.844933 -89 TGTAGGCAGAGTCCAACCATCGGTAAAGTTGATTAGAGT 34 28 0 GATGTAAAGT 0.864351 -273 GCCTACATCAGCAAATACATGGAGAAAATTGGAAAAAAT 34 60 1 GATGGAAAAT 0.918482 -241 * * * * ****** Masking position 15 Map Score: 17.6157 Number of sites scoring better than the average of aligned sites = 294 Number in coding regions = 208 Number in noncoding regions = 86 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 6 TCTCCAAGGCGATCAGCTTCTTA 1 175 0 CCAAGGCGAT 0.956005 -13 GCAGATCAAGCCAAGGCCGGCCCACGGCGA 7 81 1 CCAAGGCCGG 0.920231 -113 CAAGGCCGGCCCACGGCGATCGCCCTTTAG 7 92 1 CCACGGCGAT 0.961791 -102 GGATGCGCCTCCACGGCCGAATATTTCCTG 8 87 0 CCACGGCCGA 0.894722 -64 CGGTTATCCCCCTCGGGGAGCATTGCCTTT 14 37 1 CCTCGGGGAG 0.832812 -51 CAAAATCTGCCCACTGCGGTGACATGATGG 16 36 0 CCACTGCGGT 0.740171 -145 TAAAACTAAGCCATGGGGAGTCCAAAATCT 16 58 0 CCATGGGGAG 0.764737 -123 TAACGGGATGCCAAGGGAGTAATTTTTAAT 17 29 0 CCAAGGGAGT 0.727343 -49 ATCGCCATCGCCAAGGCGGATTTTTTGTCC 18 38 0 CCAAGGCGGA 0.941491 -262 ATTGGTCTTTCCTCGGCCATGGTCAAGGCC 22 83 0 CCTCGGCCAT 0.827519 -120 CCCACTGAGACCATGGGGGAAATTCAGTCA 24 153 1 CCATGGGGGA 0.793526 -62 TTGAAATTGACCTAGGGGGTCAGTTTTTGA 25 124 1 CCTAGGGGGT 0.927348 -22 AGGTTATAATCCAAGGCGTTTTCCTTCATC 27 23 0 CCAAGGCGTT 0.818555 -149 ATTAGCATTGCCTAGGGCATCGGTTGGCAG 34 108 0 CCTAGGGCAT 0.757886 -193 ********** Masking position 2 Map Score: 10.4169 Number of sites scoring better than the average of aligned sites = 1606 Number in coding regions = 1476 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 150 Fraction of orfs with sites within 600 bp upstream = 0.0240925 Motif number 7 ACCGGCCAGATAAAATTAGCCCCAGTTCTG 6 70 1 TAAAATTAGC 0.872563 -134 CGTTAATTTAGCCAAAAATTCG 6 192 0 TTAATTTAGC 0.872563 -12 GTTGTTCCGGAAAATTCAGCAGGTTGATAG 7 16 1 AAAATTCAGC 0.727755 -178 GAAAACGGGGTAAAATCAGCAAGTATTCCT 7 149 1 TAAAATCAGC 0.95432 -45 CCCAAACTGTTTAAATTAGCGTACCAAATA 10 25 1 TTAAATTAGC 0.894019 -78 CGAGAATCCCTTAATTCAGCTAAAATCGGA 11 122 0 TTAATTCAGC 0.95432 -47 TTTAACGAATTTAATACAGCATAGGTTAAT 12 47 0 TTAATACAGC 0.767083 -237 AGGATATTGATAAAATCAGCAATGCTCCGG 18 136 0 TAAAATCAGC 0.95432 -164 ATTTAAGTTTTTAAATCAGC 23 40 1 TTAAATCAGC 0.962601 -10 ********** Masking position 4 Map Score: 6.82305 Number of sites scoring better than the average of aligned sites = 62 Number in coding regions = 48 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 8 ACAAGCCTGTAATCAACTGGGCTTAGGAGAT 4 94 1 AATCACTGGG 0.890782 -31 CCAATTAATTATCATCGTGGCTTTGGCTGGA 6 21 1 ATCACGTGGC 0.60247 -183 ATCCCTTGGAATTATACTGGCCTGCCAGAGC 7 52 1 ATTAACTGGC 0.873783 -142 TAATAACCCTAATCCAGTGGGGATCAGAGC 10 83 1 AATCAGTGGG 0.947058 -20 ACATCCCCGGATTCAAGTGGCACTCCGATTT 11 99 1 ATTCAGTGGC 0.965787 -70 ACTAGCCTAAAATAGAGTGGCCTTCCCCATC 12 95 0 AATAAGTGGC 0.938211 -189 AAAACTCACCAGTCCACTGGCGACTCACCAC 15 12 1 AGTCACTGGC 0.798395 -101 CCGGGAAGAAAATAGAGTGGCCTATATCCGT 18 92 1 AATAAGTGGC 0.938211 -208 GATTTAAGCTAATCCAGTGGCTACCTTATCT 21 90 0 AATCAGTGGC 0.965787 -75 TCTAACCTTCAACCCAGTGGGGGGCGGGAGC 27 88 1 AACCAGTGGG 0.849659 -84 AAATTTCCCCATTCCACTCGGCTTGCCCAAG 30 71 0 ATTCACTCGG 0.614823 -140 GGTAAAGTTGATTAGAGTCGCCCAAACCTAA 34 15 0 ATTAAGTCGC 0.748216 -286 TAATCCTATAATTAGCGTGGGTTCCTATGCC 34 232 0 ATTACGTGGG 0.752469 -69 **** ****** Masking position 1 Map Score: 7.75525 Number of sites scoring better than the average of aligned sites = 318 Number in coding regions = 282 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 9 GTTTAACGCTTTCCCAAAAATCGCACTGCGA 1 89 0 TTCCCAAAAT 0.699356 -99 AACCAATTACTGCCCAACCTTAGAATTGAGG 2 21 0 TGCCCAACCT 0.972352 -133 ATCGTTACTTTGCCCAAACAAAAACGGTGGT 3 194 0 TGCCCAAACA 0.898496 -38 GCCTGTATTTTTCCTAAACGTTCATAATTCA 6 132 0 TTCCTAAACT 0.699356 -72 GTGGAGGCGCATCCCAAACTTCATCCTAACA 8 103 1 ATCCCAAACT 0.891383 -48 TTACTTACTATTCCCAAACTGTTTAAATTAG 10 13 1 TTCCCAAACG 0.926977 -90 TAATTAATAATTCCCAAACGTCCCATTATAC 21 28 1 TTCCCAAACT 0.967238 -137 ATTATTGTCCAGCCCAGCCCTTAGTTTTTGA 28 142 1 AGCCCAGCCT 0.789566 -56 TGATTAGAGTCGCCCAAACCTAAAACC 34 7 0 CGCCCAAACT 0.929176 -294 GAGAGGATGATGCCCAAACCTAAACAAAGCT 34 145 0 TGCCCAAACT 0.982503 -156 GCAAGCTAGTTGCCCAGCCAGAGCAGGGGAG 34 173 0 TGCCCAGCCG 0.853024 -128 ********* * Masking position 6 Map Score: 7.0787 Number of sites scoring better than the average of aligned sites = 418 Number in coding regions = 380 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 10 GGGGCGATAACCTCAATTCTAAGGTTGGGC 2 11 1 CCTCAATTCT 0.722753 -143 AATCAGTTCGCCCCAATTCTACCTCGATCG 2 96 1 CCCCAATTCT 0.963757 -58 ATAAAATTAGCCCCAGTTCTGAGAACCATT 6 79 1 CCCCAGTTCT 0.987825 -125 TTATCACTTTCCCCAGCTCTCTGCC 11 6 0 CCCCAGCTCT 0.985278 -163 TCTGTATTTTCCCCAGTATTTTGCTCCCGC 11 63 0 CCCCAGTATT 0.8934 -106 AGTGAAAGTCCCCCAGTATTGCCGGAGCTT 19 109 0 CCCCAGTATT 0.8934 -67 GATTATTAGACCCCAGTACGATAATGGCAA 30 107 1 CCCCAGTACG 0.908627 -104 CCCCCTAGCCCCCCAACTCTGGGGGGAACA 31 43 1 CCCCAACTCT 0.956396 -179 ATCATCCTCTCCCCTGCTCTGGCTGGGCAA 34 165 1 CCCCTGCTCT 0.91342 -136 ********** Masking position 4 Map Score: 9.76445 Number of sites scoring better than the average of aligned sites = 242 Number in coding regions = 204 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 11 TGCGATTTTTGGGAAAGCGTTAAACCTCTT 1 95 1 GGGAAAGCGT 0.687901 -93 AAAATAAGCTGAGAAAGGGTCAGAGCGCCT 6 159 0 GAGAAAGGGT 0.723936 -45 CAAAATACTGGGGAAAATACAGAGCAAATA 11 70 1 GGGAAAATAC 0.551823 -99 TTGATGGGATGGGGAAGGCCACTCTATTTT 12 88 1 GGGGAAGGCC 0.897573 -196 TGGCTCCGAAGGGAAATGATAACAGGGTTA 18 277 0 GGGAAATGAT 0.682115 -23 GGGTAGAATCGGTAACGGGCGATTTTTCCT 22 37 1 GGTAACGGGC 0.705668 -166 GACCATGGCCGAGGAAAGACCAATTATCCC 22 89 1 GAGGAAAGAC 0.614536 -114 TAATGGTGTAGGGGACAGGCTGGGCGGTAA 23 11 1 GGGGACAGGC 0.933568 -39 AAGTAATTAGGGGGAATGACTGAATTTCCC 24 169 0 GGGGAATGAC 0.845717 -46 TTTTTTCAAGGGGAAAAGGCGGGAAAGTTA 25 57 1 GGGAAAAGGC 0.9743 -89 TCTGGCCCATGGGAACAGGTTATAATCCAA 27 39 0 GGGAACAGGT 0.846181 -133 CAAGTATCATGGGAAAGGGCTGAATTCCTT 27 123 1 GGGAAAGGGC 0.986321 -49 TGCTGAAGGGAAAGGACAAAGACAACC 32 61 0 GGGAAAGGAC 0.970272 -17 ********** Masking position 5 Map Score: 6.26347 Number of sites scoring better than the average of aligned sites = 1635 Number in coding regions = 1483 Number in noncoding regions = 152 Number of orfs with sites within 600 bp upstream = 175 Fraction of orfs with sites within 600 bp upstream = 0.0281079 Motif number 12 GGGGCTAATTTTATCTGGCCGGTTGTCCCT 6 63 0 TTATCTGGCC 0.783411 -141 AGCCCTGTTTTTTATTGGCCCCC 9 4 0 TTTATTGGCC 0.9216 -22 AACTCCGAAGTTTTTTGTCCATCATGTCAC 16 18 1 TTTTTTGTCC 0.946115 -163 CCAAGGCGGATTTTTTGTCCAAATTTGGCT 18 28 0 TTTTTTGTCC 0.946115 -272 GAGCCTGTTTTAAATGTCCTCCTGGCCTC 19 157 0 TTAAATGTCC 0.808968 -19 AGCGTTAATTGTCCTGGGACGAGG 24 5 1 TTAATTGTCC 0.92043 -210 AATATGGCATTTTTATGGCCATTGATTACC 28 16 1 TTTTATGGCC 0.841317 -182 ATCATGGGGCATTATTGTCCAGCCCAGCCC 28 132 1 ATTATTGTCC 0.691987 -66 GTATTATTTGTCCCTGTCCTGTT 33 18 0 TTATTTGTCC 0.934432 -13 ********** Masking position 6 Map Score: 4.33854 Number of sites scoring better than the average of aligned sites = 208 Number in coding regions = 167 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 13 CAGCTTATTTTTACCGAATTTTTGGCTAAATT 6 178 1 TTCCGAATTT 0.740087 -26 TTCGTTAAATTTTCCGAGGGTTGATGGGATGG 12 68 1 TTCCGAGGTT 0.909325 -216 TGACCCTTTCTGACCGGAGGTTAAACCGGAGT 16 88 0 TGCCGGAGTT 0.940923 -93 CTCTATTTTCTTCCCGGAGATATTGCAACACC 18 77 0 TTCCGGAGTA 0.914865 -223 ATTATGGGCGTTTCCGGAGCATTGCTGATTTT 18 123 1 TTCCGGAGAT 0.914865 -177 TCCCCCAGTATTGCCGGAGCTTTAGTGAAGAG 19 99 0 TTCCGGAGTT 0.987075 -77 AACTTGTCAATTACCGGAGTTTCACTGATAAA 24 80 1 TTCCGGAGTT 0.987075 -135 GTTAACAATTTTCCGGGCGGTTATCCATCCTA 26 128 0 TTCGGGCGTT 0.848483 -42 TCTGCCAAATTTGCCGACGGTTTAGTGAGGGT 31 83 1 TTCCGACGTT 0.948601 -139 CTAATCAACTTTACCGATGGTTGGACTCTGCC 34 31 1 TTCCGATGTT 0.871238 -270 ** ****** ** Masking position 1 Map Score: 6.66225 Number of sites scoring better than the average of aligned sites = 213 Number in coding regions = 166 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 36 Fraction of orfs with sites within 600 bp upstream = 0.0057822 Motif number 14 TTGCAGAGGGACAACCGGCCAGATAAAATT 6 57 1 ACAACCGGCC 0.91147 -147 AGATCAAGCCAAGGCCGGCCCACGGCGATC 7 83 1 AAGGCCGGCC 0.801826 -111 TGCACAGGAAATATTCGGCCGTGGAGGCGC 8 83 1 ATATTCGGCC 0.768173 -68 CCCGAGGGGGATAACCGGCCTGGCCAAAAG 14 24 0 ATAACCGGCC 0.905099 -64 GGCTAGAGGAAAATTCGGCCTGCCAGCACC 15 52 1 AAATTCGGCC 0.892691 -61 TGGGGAGTCCAAAATCTGCCCACTGCGGTG 16 45 0 AAAATCTGCC 0.819847 -136 ATTTGGACAAAAAATCCGCCTTGGCGATGG 18 34 1 AAAATCCGCC 0.930882 -266 AAACTGAGTGAAAGTCCCCCAGTATTGCCG 19 115 0 AAAGTCCCCC 0.898071 -61 AAACCTAGGAAAAATCGCCCGTTACCGATT 22 43 0 AAAATCGCCC 0.936976 -160 GTTAGGATGGATAACCGCCCGGAAAATTGT 26 126 1 ATAACCGCCC 0.843411 -44 AAGTGTTTTAAAAGCCCCCCTAGCCCCCCA 31 28 1 AAAGCCCCCC 0.889059 -194 AACAGTGTTCAAAGTCTGCCAAATTTGCCG 31 69 1 AAAGTCTGCC 0.840554 -153 TTAAAAAGCCACAATCCGCCCCCTAAATAC 31 113 0 ACAATCCGCC 0.852746 -109 AAAGTTGATTAGAGTCGCCCAAACCTAAAA 34 13 0 AGAGTCGCCC 0.800948 -288 ********** Masking position 1 Map Score: 11.9603 Number of sites scoring better than the average of aligned sites = 395 Number in coding regions = 348 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 15 ATGGACTGACTCGATGGCTATTCTAGTTTG 3 114 0 TCGATGGCTA 0.786646 -118 AAGTTTGTTGGCGGTGGGTTATCCGTTGAT 3 162 1 GCGGTGGGTT 0.931264 -70 GAGGGTTGATGGGATGGGGAAGGCCACTCT 12 83 1 GGGATGGGGA 0.914734 -201 TGCTTAGTTTGCGATGGCGTCAGCGGCATC 12 231 0 GCGATGGCGT 0.980384 -53 CCAAAAGGGGGCGATGGGTT 14 1 0 GCGATGGGTT 0.969239 -87 TTAAAACTAAGCCATGGGGAGTCCAAAATC 16 59 0 GCCATGGGGA 0.905309 -122 ATCCGCCTTGGCGATGGCGATCGGGCAAAT 18 47 1 GCGATGGCGA 0.980384 -253 ATCGCCTCCGGTGGTGGGGTTACGATGGGA 26 49 0 GTGGTGGGGT 0.75683 -121 ACCACCGGAGGCGATCGGGTAATGGTAAAT 26 64 1 GCGATCGGGT 0.905309 -106 TCAAGTCTGTTCGATGGCTAAACGGCGATC 30 176 0 TCGATGGCTA 0.786646 -35 ********** Masking position 5 Map Score: 6.15625 Number of sites scoring better than the average of aligned sites = 524 Number in coding regions = 475 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639