AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i199_trans1_hpyl_reg_300.orf -o199_hpyl_300.ace -a/home/amcguire/genomes/ORF_hpyl.txt -z/home/amcguire/genomes/hpyl.fna -g0.39 -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 = 0.39 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: RHP00051 16 AE000511 RHP00601 17 AE000511 Input sequences: #1 RHP01302 205 AE000511 #2 RHP01432 290 AE000511 #3 RHP01433 60 AE000511 #4 RHP00049 77 AE000511 #5 RHP00050 34 AE000511 #6 RHP00596 88 AE000511 #7 RHP00597 223 AE000511 #8 RHP00598 45 AE000511 #9 RHP00599 108 AE000511 #10 RHP00600 44 AE000511 #11 RHP00602 300 AE000511 #12 RHP01697 35 AE000511 #13 RHP00603 300 AE000511 #14 RHP00639 22 AE000511 #15 RHP00641 153 AE000511 #16 RHP00648 31 AE000511 #17 RHP00649 116 AE000511 #18 RHP00688 22 AE000511 #19 RHP00690 78 AE000511 #20 RHP00693 42 AE000511 #21 RHP00708 16 AE000511 #22 RHP00710 34 AE000511 #23 RHP00711 36 AE000511 #24 RHP00712 164 AE000511 #25 RHP00757 83 AE000511 #26 RHP00760 300 AE000511 Motif number 1 AAAGAAGCAGTATTTTAGCTTTTTAATCCTTTAAA 1 54 1 TATTTTTTTA 0.866438 -152 AAACTTCAATTTTTCAGTATTTTTAAAGGATTAAA 1 75 0 TTTTCTTTTA 0.867093 -131 TTTTTCTGGCTTTTAGGGGGTTTTAAATTCTTTTA 1 125 1 TTTTATTTTA 0.960475 -81 TTTTAAATTCTTTTAAGGTATTCTAACAAGACTAT 1 145 1 TTTTATTCTA 0.78837 -61 ACACTCCTTGATTTAGCGGATTTTACCGCATGCAT 2 109 0 ATTTATTTTA 0.888159 -182 CCTAATTTAGTTTAAAAGGTTTTTACAAAC 4 6 0 TTTAATTTTA 0.906325 -72 ATTTAATTTTTGTTTTAATTTAAAGGG 5 3 1 TTAATTTTTA 0.782794 -32 TATTTTTCCTTATTCTAAAAATTTAAA 6 72 0 TTTTTTTCTA 0.742639 -17 TGCAGGTGGGTTTTTGGTATTTTTATCATGGATGG 7 115 1 TTTTTTTTTA 0.949557 -109 TAAAAAAGAAATTTTAAGCTTTTTAGCTCTTACGA 9 41 0 ATTTTTTTTA 0.860167 -68 AATTTTTTAATTTTAGTTTAAGCTA 11 1 1 AATTTTTTTA 0.679476 -300 TTGGATAGAATTAAAAATTCTTTTAATGTATAAAT 11 38 1 TTAAATTTTA 0.807742 -263 TGTTTTTGGATTAAATTGAGTTTTATTAGTAATAT 15 45 0 TTAAATTTTA 0.807742 -109 CTAATTTTAATATTTTAATTTATCTTA 16 15 0 AATTTTTTTA 0.679476 -17 CAAGCGTGATTTTTTCTAAATTTTAGGCATTTAAG 17 17 0 TTTTTTTTTA 0.949557 -100 TTTAGTGTATTCTTAGCAAATTTTAGATAAGATCA 17 50 0 TCTTATTTTA 0.720432 -67 CGCTTGAAATTAAAACTAAATTTTAGTGTATTCTT 17 71 0 TAAAATTTTA 0.426328 -46 AAATATGTTAATATAAAAGTTTTTAGTAGTGCCTA 19 32 1 ATATATTTTA 0.7922 -47 TTTAGAGATTTTTACTTCCTTTTTATAAGGAAATA 24 17 0 TTTACTTTTA 0.722577 -148 CTTTTGCTATTTTTAGGGCTTTTTAGAGATTTTTA 24 38 0 TTTTATTTTA 0.960475 -127 TTTTATTGTTTTATTCTGTTTTTTAGTAACGGATA 24 116 1 TTATTTTTTA 0.900367 -49 GAGTGTTTTTTTATAACCGCTTTTAGTATAAAGGC 25 38 1 TTATATTTTA 0.920831 -46 CGAAGCGCAATTTTATGAAGTTTTAGAAAACCTTT 26 17 0 TTTTATTTTA 0.960475 -284 CCCCATGCAAAAAAAGATTTTTTTATTAGAAGACG 26 128 1 AAAAATTTTA 0.337776 -173 TCTTATTTTTACCTTTTATTAAACTTCA 26 283 0 TATTTTTTTA 0.866438 -18 ***** ***** Masking position 11 Map Score: 21.3204 Number of sites scoring better than the average of aligned sites = 1362 Number in coding regions = 1025 Number in noncoding regions = 337 Number of orfs with sites within 600 bp upstream = 261 Fraction of orfs with sites within 600 bp upstream = 0.041921 Motif number 2 AAAAATACTGAAAAATTGAAGTTTTTTAAA 1 86 1 AAAAATTGAA 0.677983 -120 TAAAAACCTTTTAAACTAAATTAGGGTAGT 4 16 1 TTAAACTAAA 0.928957 -62 AAGCCCTATCAAAGATTAAATGCTATAATA 4 45 0 AAAGATTAAA 0.606275 -33 AAATTAAAACAAAAATTAAAT 5 2 0 AAAAATTAAA 0.86838 -33 TTTTATCCCTTTAAATTAAAACAAAAATTA 5 14 0 TTAAATTAAA 0.897427 -21 TCTAAAAATTTAAAACTAAAAGTTCCCCCA 6 56 0 TAAAACTAAA 0.940918 -33 TCACATTTTTTTAAATTAAAGCCATCACAG 8 15 0 TTAAATTAAA 0.897427 -31 ATCTTCAGCCTAAGATTAAAAACTCCTAAC 9 12 0 TAAGATTAAA 0.737099 -97 CCAAAATAGCTTAAACTAAAATTAAAAAAT 11 12 0 TTAAACTAAA 0.928957 -289 TCGCCCTCACTTAAACTTAATACATTTATA 11 66 0 TTAAACTTAA 0.506903 -235 TAGGCGTCTCAAAAACTAAAATGTTATCCT 13 85 0 AAAAACTAAA 0.897405 -216 GATTTTAGAATTATACTAAACAAAATCCTA 13 253 0 TTATACTAAA 0.739201 -48 ATCCATTTCAAAAAATTAAGGAGAAATACA 13 280 1 AAAAATTAAG 0.664859 -21 GGGTTAAAATTAAGGAGACATT 14 5 1 TAAAATTAAG 0.783176 -18 GTTTTATTAGTAATATTAAAGCTCAAAACG 15 31 0 TAATATTAAA 0.722007 -123 TGTTTTTGGATTAAATTGAGTTTTATTAGT 15 50 0 TTAAATTGAG 0.486737 -104 AAACTAAGATAAATTAAAATATTAAAAT 16 9 1 ATAAATTAAA 0.844322 -23 CGCTTGAAATTAAAACTAAATTTTAGTGTA 17 76 0 TAAAACTAAA 0.940918 -41 ACAATAAAATAAAAACTGAAATACTACTCA 24 95 0 AAAAACTGAA 0.736238 -70 CTAATTGCCTTTATACTAAAAGCGGTTATA 25 49 0 TTATACTAAA 0.739201 -35 ********** Masking position 7 Map Score: 18.0143 Number of sites scoring better than the average of aligned sites = 429 Number in coding regions = 297 Number in noncoding regions = 132 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 3 AAATAAAGAAGCAGTATTTTAGCTTTTTAATC 1 50 1 GAGTATTTAG 0.977647 -156 CTGAAAAATTGAAGTTTTTTAAAATTTGGAGT 1 93 1 GAGTTTTTAA 0.940058 -113 AAATTCTTTTAAGGTATTCTAACAAGACTATA 1 149 1 AGGTATTTAA 0.857326 -57 CTATCTATCAGAGGTTGTATAGTTGGAAAAAG 2 215 1 GGGTTGTTAG 0.939284 -76 CTAAATTAGGGTAGTATTATAGCATTTAATCT 4 31 1 GAGTATTTAG 0.977647 -47 GGTATAATCAAAAGTTTTTTAGACCTTGCTCT 15 91 1 AAGTTTTTAG 0.857571 -63 CATTCTCCTTGTGGTTGTATAGCCCTTTTTTT 15 131 0 GGGTTGTTAG 0.939284 -23 CGCATTTTGAGTAGTATTTCAGTTTTTATTTT 24 88 1 GAGTATTCAG 0.864501 -77 GGGGGTATTGTAGCGCTAATTGC 25 71 0 GGGTATTTAG 0.985953 -13 CTATGAAAAGGTTTTCTAAAACTTCATAA 26 8 1 AGGTTTTTAA 0.820234 -293 AAAAACATAGGAAGTATTATAACAAAGCCCGC 26 77 1 GAGTATTTAA 0.953818 -224 TTTTTGCATGGGGGTATTGTAGCGCTTAATGA 26 109 0 GGGTATTTAG 0.985953 -192 CAATGAAATGGGGGTATTTTAAAAAAATGAGT 26 226 0 GGGTATTTAA 0.970713 -75 AAAACCCATTGAAGTTTAATAAAAGGTAAAAA 26 274 1 GAGTTTATAA 0.606845 -27 * ****** *** Masking position 11 Map Score: 18.0339 Number of sites scoring better than the average of aligned sites = 146 Number in coding regions = 117 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 4 TTTAAAGGATTAAAAAGCTAAAATACTGCTTC 1 57 0 TAAAAAGCAA 0.702405 -149 AAAAGCCAGAAAAAACTCCAAATTTTAAAAAA 1 107 0 AAAAACTCAA 0.865994 -99 AATTTCCTTAAAACTATCTCAATGATATAGTC 1 174 0 AAACTATCAA 0.657735 -32 TTATGGGGCAAAAAAAGTAGAATCTGTATCAA 2 66 1 AAAAAAGTAA 0.530624 -225 GATTTTCTTCAAAAAATCCTAATAGTGTGGTT 2 162 0 AAAAAATCAA 0.916113 -129 GATTTTTTGAAGAAAATCAAAACAATCAATTT 2 176 1 AGAAAATCAA 0.727319 -115 GTATAGTTGGAAAAAGGAATAATGCGAACAAT 2 231 1 AAAAAGGAAA 0.628291 -60 TATGAAAAATCGGTTAAGATTTTTAAA 6 6 1 AAAATCGGAA 0.715521 -83 AAATTAGGGTAAAATGGGGGAACTTTTAGTTT 6 42 1 AAAATGGGAA 0.715521 -47 ACTAGATCAGAGAAAGGCGCAAAGGCCTTTCT 7 22 0 AGAAAGGCAA 0.767148 -202 ATCCATGATAAAAATACCAAAAACCCACCTGC 7 116 0 AAAATACCAA 0.597056 -108 CTTTAATTTAAAAAAATGTGAAGGATTGGATT 8 24 1 AAAAAATGAA 0.738653 -22 GCCTAAGATTAAAAACTCCTAACG 9 3 0 AAAAACTCAA 0.865994 -106 TCGTAAGAGCTAAAAAGCTTAAAATTTCTTTT 9 41 1 TAAAAAGCAA 0.702405 -68 GGTCTAGTCTAGAAAGGAGGAAAAG 9 94 1 AGAAAGGAAA 0.292202 -15 AATTCTATCCAAAATAGCTTAAACTAAAATTA 11 18 0 AAAATAGCAA 0.942607 -283 AGAAAAATCCAACAAAGCTAAAAACAGCGTGA 11 223 0 AACAAAGCAA 0.655021 -78 CGATAAGACAAAAATGTCTTAAATTTTGTGGT 13 205 1 AAAATGTCAA 0.823196 -96 TTTAATCCAAAAACAAGCGAAAGCAAGGTATA 15 65 1 AAACAAGCAA 0.847736 -89 TTTTTTTACTAAAAAAGAGCAAGGTCTAAAAA 15 106 0 AAAAAAGAAA 0.740692 -48 TATTTCAATGAAAATATGTTAATATAAAAGTT 19 21 1 AAAATATGAA 0.670651 -58 AAAGGAAGTAAAAATCTCTAAAAAGCCCTAAA 24 30 1 AAAATCTCAA 0.823196 -135 AAAAGCCCTAAAAATAGCAAAAGTTATTGACT 24 50 1 AAAATAGCAA 0.942607 -115 AAACTCTCCTAAAAGAACTCGT 24 153 0 AAACTCTCAA 0.532091 -12 ******** ** Masking position 11 Map Score: 15.0652 Number of sites scoring better than the average of aligned sites = 1978 Number in coding regions = 1712 Number in noncoding regions = 266 Number of orfs with sites within 600 bp upstream = 200 Fraction of orfs with sites within 600 bp upstream = 0.0321234 Motif number 5 TAGCTTTTTAATCCTTTAAAAATACTGAAA 1 69 1 ATCCTTTAAA 0.751416 -137 GAATTTAAAACCCCCTAAAAGCCAGAAAAA 1 125 0 CCCCCTAAAA 0.897585 -81 CTTGTTAGAATACCTTAAAAGAATTTAAAA 1 145 0 TACCTTAAAA 0.843344 -61 GTTCCTTAATTTCCTTAAAACTATCTCAAT 1 183 0 TTCCTTAAAA 0.962868 -23 ATCCCCTTTAAGTTGTAAGTAA 3 49 0 CCCCTTTAAG 0.753847 -12 CTATTTTCCCCTAAAGCCCTATCAAA 4 62 0 TCCCCTAAAG 0.82905 -16 GTTTTATCCCTTTAAATTAAAACAAA 5 19 0 TCCCTTTAAA 0.933813 -16 GATTCTAATCCTTAAAAATTTCTTTCA 10 28 0 ATCCTTAAAA 0.911728 -17 TGATTCCTTAAATGCCTAAAATT 17 4 1 TTCCTTAAAT 0.853155 -113 CATTGAAATAACCCTTAAAT 19 1 0 ACCCTTAAAT 0.811403 -78 TTTTTATATTTCCTTATAAAAAGGAAGTA 24 10 1 TTCCTTATAA 0.718481 -155 AAAAAAACACTCCCTTAAAAAAGACACCGC 25 20 0 TCCCTTAAAA 0.979678 -64 CATTATAACGCTCCTTAAAAAACATAGGAA 26 60 1 CTCCTTAAAA 0.941999 -241 CTTAACGCTCTCGCTTAAAAGGTAATCGTC 26 159 0 TCGCTTAAAA 0.813061 -142 ********** Masking position 9 Map Score: 11.4705 Number of sites scoring better than the average of aligned sites = 754 Number in coding regions = 590 Number in noncoding regions = 164 Number of orfs with sites within 600 bp upstream = 143 Fraction of orfs with sites within 600 bp upstream = 0.0229682 Motif number 6 CGCACATAAGAAGTAGAAAATAAAGAAGCA 1 33 1 AAGTAGAAAA 0.807145 -173 AGATAGTTTTAAGGAAATTAAGGAACAAA 1 187 1 AAGGAAATTA 0.584268 -19 TAGTTGGAAAAAGGAATAATGCGAACAATT 2 234 1 AAGGAATAAT 0.582295 -57 TTTTTAGAATAAGGAAAAATA 6 78 1 AAGGAAAAAT 0.934053 -11 CTAGTCTAGAAAGGAGGAAAAG 9 97 1 AAGGAGGAAA 0.850472 -12 GGCTTTAAATAAGGAGAATA 11 291 1 AAGGAGAATA 0.919427 -10 TCAAAAAATTAAGGAGAAATACAA 13 287 1 AAGGAGAAAT 0.971146 -14 GGTTAAAATTAAGGAGACATT 14 12 1 AAGGAGACAT 0.852461 -11 ATACAACCACAAGGAGAATGG 15 143 1 AAGGAGAATG 0.847973 -11 CGAATAAGGAGATGATGATTTA 18 6 1 AAGGAGATGA 0.66204 -17 AATTTTTTCAAAGGAGAAAAATC 19 66 1 AAGGAGAAAA 0.974994 -13 GAAAGGAGAAAGCGTT 21 3 1 AAGGAGAAAG 0.950147 -14 TCCTTTTTATAAGGAAATATAAAAA 24 6 0 AAGGAAATAT 0.805644 -159 TATAAAAAGGAAGTAAAAATCTCTAAAAAG 24 25 1 AAGTAAAAAT 0.603227 -140 AGTTTAATAAAAGGTAAAAATAAGA 26 286 1 AAGGTAAAAA 0.600336 -15 ********** Masking position 2 Map Score: 11.2195 Number of sites scoring better than the average of aligned sites = 200 Number in coding regions = 126 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 7 TTAAAAAGCTAAAATACTGCTTCTTTATTTT 1 49 0 AAATACTGCT 0.730981 -157 TGCTTCCATAATAACACTCCTTGATTTAGCG 2 126 0 AAACACTCCT 0.938851 -165 ATTAAATGCTATAATACTACCCTAATTTAGT 4 30 0 AAATACTACC 0.88097 -48 TTTAAAACTAAAAGTTCCCCCATTTTACCCT 6 47 0 AAGTTCCCCC 0.769973 -42 GCTCAGAGGCAGAGCACTTCCTTGGTAAGGA 13 119 1 AAGCACTTCC 0.824072 -182 CGGTTATAAAAAAACACTCCCTTAAAAAAGA 25 26 0 AAACACTCCC 0.984123 -58 AATTAGCGCTACAATACCCCC 25 73 1 AAATACCCCC 0.984123 -11 CGTTTTCATTATAACGCTCCTTAAAAAACAT 26 54 1 AAACGCTCCT 0.762015 -247 GGGCTTTGTTATAATACTTCCTATGTTTTTT 26 76 0 AAATACTTCC 0.92883 -225 ATTAAGCGCTACAATACCCCCATGCAAAAAA 26 111 1 AAATACCCCC 0.984123 -190 TCATTTTTTTAAAATACCCCCATTTCATTGT 26 228 1 AAATACCCCC 0.984123 -73 * ********* Masking position 3 Map Score: 8.71842 Number of sites scoring better than the average of aligned sites = 324 Number in coding regions = 286 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 8 TTATCATTCCCACCAATTTTTATAATATCAT 2 269 0 CACCATTTTT 0.791378 -22 CCCCATTTTACCCTAATTTTTCTTTTAAAAA 6 30 0 CCCTATTTTT 0.951393 -59 ACTAAAAGTTCCCCCATTTTACCCTAATTTT 6 41 0 CCCCATTTTA 0.950896 -48 ATACGCAACGCACTTATTTCTGTTTTGGTGG 11 180 1 CACTATTTCT 0.429129 -121 CCCGTTTCCCGCTCCATTTTTAGGATAACAT 13 64 1 GCTCATTTTT 0.897269 -237 TTGTATTTCTCCTTAATTTTTTGAAATGGAT 13 280 0 CCTTATTTTT 0.873922 -21 AATGTCTCCTTAATTTTAACCC 14 5 0 CCTTATTTTA 0.844782 -18 TTTAGACCTTGCTCTTTTTTAGTAAAAAAAG 15 108 1 GCTCTTTTTA 0.525399 -46 TGGTTGTATAGCCCTTTTTTTACTAAAAAAG 15 121 0 GCCCTTTTTT 0.799248 -33 ATAAGATCAAGCGTGATTTTTTCTAAATTTT 17 28 0 GCGTATTTTT 0.823457 -89 TTTTAGTAGTGCCTAATTTTTTCAAAGGAGA 19 52 1 GCCTATTTTT 0.951393 -27 ATCTAACCCTTATTTTATTATCTCAAT 23 20 0 CCCTATTTTA 0.938907 -17 AAAAGACACCGCTTTATTTTA 25 1 0 GCTTATTTTA 0.844782 -83 AACGAACGAAGCGCAATTTTATGAAGTTTTA 26 27 0 GCGCATTTTA 0.821897 -274 TGCCTTGACTGACTCATTTTTTTAAAATACC 26 215 1 GACTATTTTT 0.750654 -86 TTTTAAAATACCCCCATTTCATTGTAAAATT 26 234 1 CCCCATTTCA 0.828631 -67 **** ****** Masking position 7 Map Score: 13.5816 Number of sites scoring better than the average of aligned sites = 801 Number in coding regions = 691 Number in noncoding regions = 110 Number of orfs with sites within 600 bp upstream = 87 Fraction of orfs with sites within 600 bp upstream = 0.0139737 Motif number 9 TTTTAAAATTTGGAGTTTTTTCTGGCTTTT 1 109 1 TGGAGTTTTT 0.87412 -97 TTGTTATGAATTGAGTTTGATTGATAGGGG 2 24 1 TTGAGTTTGA 0.721884 -267 CCACACTATTAGGATTTTTTGAAGAAAATC 2 164 1 AGGATTTTTT 0.857032 -127 AGTGCGGCAGATGATTTTGCTCCATGATTT 7 51 1 ATGATTTTGC 0.778924 -173 ATTTTGCTCCATGATTTTGTTTGTGAGCGT 7 64 1 ATGATTTTGT 0.810302 -160 CGTTAGGAGTTTTTAATCTTAGGC 9 5 1 AGGAGTTTTT 0.87412 -104 TTGGGTTTTGTTGGAATTGAA 10 2 1 TGGGTTTTGT 0.821102 -43 TTAGCTTTGTTGGATTTTTCTCTAGGGGCT 11 234 1 TGGATTTTTC 0.831778 -67 AGGAATACTTAGGATTTTGTTTAGTATAAT 13 244 1 AGGATTTTGT 0.929792 -57 TTGGATTAAATTGAGTTTTATTAGTAATAT 15 45 0 TTGAGTTTTA 0.540207 -109 GAGAGCGTTAAGGAGTTTGACTCATTGAAA 26 177 1 AGGAGTTTGA 0.889471 -124 TAAACTTCAATGGGTTTTGCATGAAAGAAT 26 262 0 TGGGTTTTGC 0.79105 -39 ********** Masking position 6 Map Score: 5.99401 Number of sites scoring better than the average of aligned sites = 651 Number in coding regions = 592 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577 Motif number 10 TTTAGCTTTTTAATCCTTTAAAAATACTGA 1 67 1 TAATCCTTTA 0.926509 -139 TTTGTTCCTTAATTTCCTTAAA 1 194 0 TGTTCCTTAA 0.716668 -12 TTGTTCGCATTATTCCTTTTTCCAACTATA 2 232 0 TATTCCTTTT 0.705367 -59 GTTTTATCCCTTTAAATTAAAACA 5 21 0 TATCCCTTTA 0.952788 -14 GATTCTAATCCTTAAAAATTTCTTT 10 30 0 TAATCCTTAA 0.895967 -15 TAATAGGAAATATCACTTTAGAAAGCTCTT 11 142 0 TATCACTTTA 0.638096 -159 AATGACCCTTTATGGTAACTCT 12 24 0 TGACCCTTTA 0.927029 -12 TTCATTGAAATAACCCTTAAAT 19 3 0 TAACCCTTAA 0.952788 -76 ATCAAACCCTTTATATTATATTC 22 22 0 AAACCCTTTA 0.8061 -13 ATCTAACCCTTATTTTATTATCT 23 24 0 TAACCCTTAT 0.848712 -13 ********** Masking position 7 Map Score: 5.37006 Number of sites scoring better than the average of aligned sites = 399 Number in coding regions = 315 Number in noncoding regions = 84 Number of orfs with sites within 600 bp upstream = 84 Fraction of orfs with sites within 600 bp upstream = 0.0134918 Motif number 11 AATGCTATAATCACCCCTATCAATCAAACTCAA 2 34 0 TCACCTACAA 0.951648 -257 TTGAAGAAAATCAAAACAATCAATTTGTCATTC 2 182 1 TCAACAACAA 0.755379 -109 AATCAATTTGTCATTCCTATCTATCAGAGGTTG 2 199 1 TCATCTACTA 0.806528 -92 CTTATCATTCCCACCAATTTTTATAAT 2 274 0 TCATCCACAA 0.969717 -17 AAACCCACCTGCAATACTAACCACTTTAGGCCA 7 95 0 GCATCTACCA 0.8038 -129 TCTTTAAACTTTAGAACCATCCATGATAAAAAT 7 133 0 TTAACCACCA 0.842688 -91 AAAATTTCTTTCAATTCCAACAAAACCCAA 10 8 0 TCATCCACAA 0.969716 -37 AAAAGAATTTTTAATTCTATCCAAAATAGCTTA 11 29 0 TTATCTACCA 0.843474 -272 TTTAGAAAGCTCTTCTCTAGCCAATTTATATTG 11 123 0 TCTCCTACCA 0.730413 -178 GTGATAGCGCTCACCACCACCAAAACAGAAATA 11 194 0 TCACCCACAA 0.969123 -107 TTCTCCTTATTTAAAGCCACCAACCTATAGAAC 11 276 0 TTAACCACAA 0.831772 -25 *** * *** *** Masking position 9 Map Score: 2.97768 Number of sites scoring better than the average of aligned sites = 148 Number in coding regions = 134 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 12 ********** No masking Map Score: -6.49903e-12 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 13 ********** No masking Map Score: -6.49903e-12 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 ATATCATTGAGATAGTTTTAAGGAAATTAAGGA 1 178 1 GATGTTAAGG 0.83659 -28 GAGCCTGTGATGGCTTTAATTTA 8 1 1 GAGCGTATGG 0.937368 -45 AAGTTTAAGTGAGGGCGAAAAGGAACTATGGAT 11 78 1 GAGGGAAAGG 0.986507 -223 CCTAAAAATGGAGCGGGAAACGGGACTCGAACC 13 55 0 GAGGGAACGG 0.95744 -246 TTCTAAATTTTAGGCATTTAAGGAATCA 17 6 0 TAGCTTAAGG 0.758846 -111 GTTTTTTAAGGAGCGTTATAATGAAAACGAACG 26 50 0 GAGGTAAATG 0.761411 -251 CCTTTTAAGCGAGAGCGTTAAGGAGTTTGACTC 26 167 1 GAGGGTAAGG 0.991546 -134 TTAAAAAAATGAGTCAGTCAAGGCAATCTAAAT 26 207 0 GAGCGTAAGG 0.986318 -94 *** * ** **** Masking position 10 Map Score: 1.09027 Number of sites scoring better than the average of aligned sites = 135 Number in coding regions = 122 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 15 ATGTGCGCGATTGCGTGCGGTGTGCGGAA 1 9 0 TTGCGTGGGT 0.900126 -197 TTCATAACAATTAAAGGTGGTTA 2 3 0 TTAAAGGGGT 0.901725 -288 TTTTATTAAGATGCATGCGGTAAAATCCGCT 2 99 1 ATGCATGGGT 0.744023 -192 AAAATTAGGGTAAAATGGGGGAACTTTTAGT 6 41 1 TAAAATGGGG 0.796608 -48 GTGGTTAGTATTGCAGGTGGGTTTTTGGTAT 7 104 1 TTGCAGGGGG 0.967617 -120 TGTATTAAGTTTAAGTGAGGGCGAAAAGGAA 11 72 1 TTAAGTGGGG 0.914405 -229 GCGTGGTGCGTTAAAGGCGGTGGT 17 103 1 TTAAAGGGGT 0.901725 -14 AAATCTTTTTTTGCATGGGGGTATTGTAGCG 26 117 0 TTGCATGGGG 0.973137 -184 AATTTTACAATGAAATGGGGGTATTTTAAAA 26 234 0 TGAAATGGGG 0.853047 -67 ******* *** Masking position 7 Map Score: 2.1785 Number of sites scoring better than the average of aligned sites = 173 Number in coding regions = 157 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678