AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i171_1_7_99_6_mjan_reg_300.orf -o171_mjan_300.ace -a/home/amcguire/genomes/ORF_mjan.txt -z/home/amcguire/genomes/mjan.fna -g0.31 -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 = 0.31 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 RMJ05650 213 M_jannaschii_chromosome #2 RMJ11762 83 M_jannaschii_chromosome #3 RMJ12007 203 M_jannaschii_chromosome #4 RMJ14441 286 M_jannaschii_chromosome #5 RMJ05775 271 M_jannaschii_chromosome #6 RMJ14343 124 M_jannaschii_chromosome #7 RMJ14151 93 M_jannaschii_chromosome #8 RMJ14817 43 M_jannaschii_chromosome #9 RMJ11840 197 M_jannaschii_chromosome #10 RMJ12613 227 M_jannaschii_chromosome #11 RMJ07178 197 M_jannaschii_chromosome #12 RMJ06181 270 M_jannaschii_chromosome #13 RMJ05205 170 M_jannaschii_chromosome #14 RMJ01354 84 M_jannaschii_chromosome Motif number 1 CTCAAACATTATTTTTTATTTATTTTGTATTT 1 123 1 ATTTTTTATA 0.908387 -91 ATTTCATCTCATTTTTTTATTTTTTATTGTAA 4 13 1 ATTTTTTTTT 0.948339 -274 TATCATCGCTATTTTTTTCATATTTATCACCT 4 77 0 ATTTTTTTTA 0.938179 -210 TAAATATTTTATTTTTTTGTTA 5 1 0 ATTTTTTTTA 0.938179 -271 ATTTTGGATAATTCTTTTAATTGGAGGAATCA 5 118 1 ATTCTTTTTT 0.879437 -154 CTTTACTGTTATTTTTGTTATTACTTTTTAAT 5 178 0 ATTTTTGTTT 0.923719 -94 CACCTCAAATATTATTTTTGTTTAAAAGGAAT 5 215 0 ATTATTTTTT 0.820602 -57 ATTTTTTATTTTCATGGTTGTG 6 1 1 ATTTTTTATT 0.923042 -124 AAATTTTTGGTATTAAACATCAAT 7 3 1 ATTTTTGGTT 0.784533 -91 TTAAACATCAATTCTTTTTATAAAAATTGTAG 7 23 1 ATTCTTTTTA 0.857759 -71 TCTTTGATTATTTTTGTGGTAAATAAAAACT 7 73 0 ATTTTTGTTA 0.909181 -21 TAGTAGAGGTATTTTTGGGATTGATATC 8 26 1 ATTTTTGGTT 0.784532 -18 AGTTTTTAAAATTATTGAGGTTTTACTAAAAA 9 60 0 ATTATTGATT 0.663474 -138 ACAACCGTGAATTATTAATTTATAATTTTTTT 9 146 1 ATTATTAATA 0.6246 -52 ATTAATTTATAATTTTTTTATACAATCCTTGT 9 159 1 AATTTTTTTA 0.753865 -39 ACGACTCAAAATTTTTTATATAGCTTTGCATA 10 33 0 ATTTTTTATA 0.908387 -195 AAGATATATCATTTTTATTGTTTTATTTTAAT 10 143 1 ATTTTTATTT 0.925161 -85 TGTTTTTTGTATTTTTAATGTTGTGGATTTTG 10 182 1 ATTTTTAATT 0.889797 -46 ATTTTTTGGATACTTTACCCAT 10 216 0 ATTTTTTGTA 0.820241 -12 ATAACCTTTAATTTTTAATTTTATCTTTTATT 11 30 1 ATTTTTAATT 0.889797 -168 TTATTTTTTCATTTTTTTTATTTTATATATTA 11 57 1 ATTTTTTTTT 0.948339 -141 GCTGATTTACAATCTTATAATTAATTATAATA 11 84 0 AATCTTATTT 0.490181 -114 AATGCAACTGAATTTTAACCTAATTTGCTAAT 11 132 0 AATTTTAATA 0.574037 -66 TATAAAAAATATTCTTTAAATATGTGTTTTAT 11 164 1 ATTCTTTATA 0.797573 -34 ATTAATTTTTATTTTTATTTTTGCAC 12 5 1 ATTTTTATTT 0.925161 -266 TACCTACAATATTATTATCTTTTATAGGTTTA 12 59 0 ATTATTATTT 0.754923 -212 AGTTGATATAATTATTATGATAAATCCTGATT 12 97 0 ATTATTATTA 0.718031 -174 GTATAAATATATTTTTGACCTTCTTCTTTTGG 12 164 0 ATTTTTGATT 0.887794 -107 TTTACATTAAAATCTTTTCTTTTTCATTGTAT 12 192 0 AATCTTTTTT 0.595504 -79 ATCACCAACAAATTTTTAATTATAATTTATAA 13 25 0 AATTTTTATA 0.666797 -146 ATAAAAAACTATTTTTATTCTAACTTAAAACA 14 55 0 ATTTTTATTA 0.91087 -30 ******** ** Masking position 6 Map Score: 38.013 Number of sites scoring better than the average of aligned sites = 1896 Number in coding regions = 1318 Number in noncoding regions = 578 Number of orfs with sites within 600 bp upstream = 431 Fraction of orfs with sites within 600 bp upstream = 0.0692258 Motif number 2 GTAAATGGATAAAATCCAAATATTGAGGAAAATC 1 88 1 AAAATAAATT 0.870589 -126 AAACTTGTCAAAAATACAAAATAAATAAAAAATA 1 132 0 AAAATAAAAA 0.968234 -82 TTATCCCAAAAAAACATAAACAAAAACTTGTCAA 1 155 0 AAAACAAAAA 0.911187 -59 ATAAGGTGAAAAAACTCAAAGAAACTATAAAAAG 3 167 1 AAAACAAAAA 0.911187 -37 ATAACCATTTACAATAAAAAATAAAAAAATGAGA 4 19 0 ACAATAAAAA 0.930393 -268 AAAGGTGATAAATATGAAAAAAATAGCGATGATA 4 75 1 AATATAAAAT 0.849873 -212 AAATGTTCAAACTACTCAAAATAATCAGCAAAAT 4 183 1 ACTACAAAAA 0.69626 -104 TATCATCCAGAAAATCCAAATAAAAGCAAATGGA 5 85 0 AAAATAAAAA 0.968234 -187 TAAGAAAACAAATATATAAATTTTACTAAGTTGT 6 44 0 AATATAAATT 0.71914 -81 ATTGATGTTTAATACCAAAAATTT 7 1 0 AATACAAATT 0.536765 -93 TCATACTTTCAAAATTTAAATATATAATTAT 9 8 0 AAAATAAATA 0.910603 -190 TTTACTAAAAACAATAAAAACAAAAGTTATCATA 9 37 0 ACAATAAAAA 0.930393 -161 TAACACTCATAATATATAAACCTTTCGATTAAAA 9 91 0 AATATAAATT 0.774884 -107 TTGTATAAAAAAATTATAAATTAATAATTCACGG 9 150 0 AAATTAAAAA 0.631387 -48 AATTGGTGAAAATATGCAAAGCTATATAAAAAAT 10 21 1 AATATAAATA 0.904248 -207 AATACTTACCAATATTAAAAGATATATCATTTTT 10 125 1 AATATAAATA 0.904241 -103 TTAAAATAAAACAATAAAAATGATATATCTTTTA 10 140 0 ACAATAAAAT 0.829712 -88 CACAACATTAAAAATACAAAAAACAGCAGTATAT 10 173 0 AAAATAAAAC 0.773695 -55 ATATAATATAAAATCCAAAATAACCTTTAATTT 11 10 1 AAAATAAAAA 0.968234 -188 AATAAAAGATAAAATTAAAAATTAAAGGTTATTT 11 28 0 AAAATAAATA 0.948751 -170 TAAAATAAAAAAAATGAAAAAATAAAAGATAAAA 11 48 0 AAAATAAATA 0.948809 -150 AATTAATTATAATATATAAAATAAAAAAAATGAA 11 64 0 AATATAAAAA 0.939502 -134 TGCAAAAATAAAAATAAAAATTAAT 12 2 0 AAAATAAAAA 0.968234 -269 ATATATTTATACAATGAAAAAGAAAAGATTTTAA 12 184 1 ACAATAAAAA 0.930393 -87 ***** *** ** Masking position 8 Map Score: 37.3793 Number of sites scoring better than the average of aligned sites = 987 Number in coding regions = 677 Number in noncoding regions = 310 Number of orfs with sites within 600 bp upstream = 244 Fraction of orfs with sites within 600 bp upstream = 0.0391905 Motif number 3 CCACTATGTAGGTGTTTATAGATTTTAAGTAATCT 1 41 0 GGTTTTAATT 0.601033 -173 CTCAATATTTGGATTTTATCCATTTACAACCACCG 1 80 0 GGATTTCATT 0.631556 -134 TATTTATTTTGTATTTTTGACAAGTTTTTGTTTAT 1 139 1 GTATTTAAAT 0.913114 -75 AAGTTAAGAAAGATTTTGTAAAACTTGAGGAA 2 62 1 AGATTTAAAT 0.769333 -22 TATCATCGCTATTTTTTTCATATTTATCACCTTTA 4 74 0 ATTTTTAATT 0.819569 -213 ATTATTTTGAGTAGTTTGAACATTTTGAGCTGTTT 4 173 0 GTATTTAATT 0.927358 -114 TTTCTGGATGATATTTTGGATAATTCTTTTAATTG 5 106 1 ATATTTAAAT 0.936631 -166 AGCAACATCAGTTTTTTCCACATTTTCTCACCTCA 5 240 0 GTTTTTAATT 0.771339 -32 TGGTTGTGCAATAATTTTCACAACTTAGTAAAATT 6 25 1 ATATTTAAAT 0.937019 -100 ACAACTTAGTAAAATTTATATATTTGTTTTCTTAC 6 44 1 AAATTTAATT 0.607442 -81 AAAAGTTATCATACTTTCAAAATTTAAATATATAA 9 15 0 ATATTTAATT 0.926265 -183 TAAAACCTCAATAATTTTAAAAACTTTTAATCGAA 9 67 1 ATATTTAAAT 0.908467 -131 ATAGCTTTGCATATTTTCACCAATTAAAAATAATT 10 11 0 ATATTTCAAT 0.817348 -217 ATTTTTTGGATACTTTACCCATCTCAAAATCCAC 10 204 0 ATATTTCATT 0.844698 -24 TATTTAAAGAATATTTTTTATAAATGCAACTGAAT 11 151 0 ATATTTAAAT 0.916324 -47 CACTTTGAAGATAGTTGATATAATTATTATGATAA 12 106 0 ATATTGAAAT 0.612237 -165 CATCTGTCAAATACATTGTAAATGTTTGCAGATAT 12 225 1 ATAATTAATT 0.550789 -46 TTTCACCCTAAGACTTTTAATATCTGCAAACATTT 12 244 0 AGATTTAATT 0.882525 -27 GACAAAGGTAGTTATTTTAAGATGTGATAGTGCGG 13 62 1 GTTTTTAATT 0.771363 -109 GAAATTATATATAATTACAATAAATGTTTTAAGTT 14 31 1 ATATTAAAAT 0.51331 -54 *** *** * ** * Masking position 6 Map Score: 18.7258 Number of sites scoring better than the average of aligned sites = 575 Number in coding regions = 460 Number in noncoding regions = 115 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 4 GTTTTTGTTTATGTTTTTTTGGGATAATTGAGAAGT 1 162 1 ATTTTTGGAA 0.92892 -52 CTTCTGGCTTATCCTTTTTTGTTAAACCTTTCCTCT 2 29 0 ATTTTTGTAA 0.97147 -55 TGATATTGGTAGTATTTTTAGTAATATCTTCACTGG 4 104 1 ATTTTTGTAA 0.97147 -183 AAACAAAAATAATATTTGAGGTGAGAAAATGTGGAA 5 224 1 ATTTGAGTAA 0.843657 -48 TCTTTTTATAAAAATTGTAGGGGAGAGTTTATGAGG 7 35 1 ATTGTAGGAA 0.873225 -59 TTTTGTTTTTATTGTTTTTAGTAAAACCTCAATAAT 9 46 1 ATTTTTGTAA 0.97147 -152 AAAAGATAATAATATTGTAGGTAATACAAAATCAGG 12 68 1 ATTGTAGTAA 0.947221 -203 TTATAATTAAAAATTTGTTGGTGATATTGTGACAAA 13 32 1 ATTGTTGTAA 0.955211 -139 CTTTGAATGTATCTTTTTTTGTTTAATGCTACTGCT 13 125 0 ATTTTTGTTA 0.81226 -46 AATTACAATAAATGTTTTAAGTTAGAATAAAAATAG 14 43 1 ATTTTAGTAA 0.966278 -42 GAATAAAAATAGTTTTTTATGTGATAGT 14 67 1 ATTTTAGTAA 0.966278 -18 * ***** ** * * Masking position 1 Map Score: 11.5102 Number of sites scoring better than the average of aligned sites = 113 Number in coding regions = 69 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 5 AGGACGGTGGTTGTAAATGGATAAAATCCA 1 76 1 TTGTAAATGG 0.97739 -138 GAGAAGTTTATTTTAAAGGGAAGTGTTGGA 1 191 1 TTTTAAAGGG 0.762386 -23 TAACTCCATGTTGGACTTGGGAATCATCAA 3 75 1 TTGGACTTGG 0.788438 -129 TTATTTTTTATTGTAAATGGTTATGTATGT 4 29 1 TTGTAAATGG 0.97739 -258 AATACCCAAGTTGGAAATGGGCTTGGAAAT 4 214 1 TTGGAAATGG 0.97912 -73 GGAAATGGGCTTGGAAATGGAGCGGGAAAA 4 226 1 TTGGAAATGG 0.97912 -61 ATAAAAGCAAATGGAAATGGTGAAAAGAAA 5 70 0 ATGGAAATGG 0.811064 -202 TTCCATTTGCTTTTATTTGGATTTTCTGGA 5 84 1 TTTTATTTGG 0.762126 -188 TGGATAATTCTTTTAATTGGAGGAATCATT 5 122 1 TTTTAATTGG 0.900116 -150 AATTATTTTTAATTGGTGAAAATATG 10 7 1 TTTTAATTGG 0.900116 -221 ACTCAAAATTTTTTATATAGCTTTGCATAT 10 32 0 TTTTATATAG 0.474362 -196 TGTTGTGGATTTTGAGATGGGTAAAGTATC 10 200 1 TTTGAGATGG 0.907796 -28 TAAATATGTGTTTTATATGGGTGATTAA 11 180 1 TTTTATATGG 0.893701 -18 CCTTCTTCTTTTGGAGATAGGGGTAATTAA 12 148 0 TTGGAGATAG 0.658918 -123 GTCAAATACATTGTAAATGTTTGCAGATAT 12 230 1 TTGTAAATGT 0.709802 -41 ********** Masking position 5 Map Score: 16.0666 Number of sites scoring better than the average of aligned sites = 384 Number in coding regions = 352 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 6 TTTATTTTAAAGGGAAGTGTTGGACAG 1 197 1 AGGGAGTGTT 0.972187 -17 GAATAAGACCAGTGAAGATATTACTAAAAAT 4 117 0 AGTGAGATAT 0.723609 -170 GGAGCGGGAAAAGGAAGATTTGTTGATTCAA 4 244 1 AAGGAGATTT 0.836846 -43 TTTCACCTGAAGGGTAGTTATAGTATATGTA 6 102 0 AGGGAGTTAT 0.93994 -23 TAAAAATTGTAGGGGAGAGTTTATGAGGGCA 7 43 1 AGGGAGAGTT 0.947724 -51 AGAGTTTATGAGGGCAGTTTTTATTTACCAC 7 58 1 AGGGAGTTTT 0.967922 -36 TTAATAATTCACGGTTGTGTTATATCTATGA 9 133 0 ACGGTGTGTT 0.929003 -65 TGTAATGGGAACTGGTGTTTTGGCAGTAACG 10 78 1 ACTGTGTTTT 0.784639 -150 ATTTTAATATACTGCTGTTTTTTGTATTTTT 10 167 1 ACTGTGTTTT 0.784639 -61 TATTGTGACAAAGGTAGTTATTTTAAGATGT 13 56 1 AAGGAGTTAT 0.836846 -115 AGACTATGAGAATGTTGAGTTA 13 159 1 AATGTGAGTT 0.581956 -12 TTTCTTAAAAAGGGATGTGATAGA 14 4 0 AGGGTGTGAT 0.929423 -81 **** ****** Masking position 1 Map Score: 8.0777 Number of sites scoring better than the average of aligned sites = 354 Number in coding regions = 332 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 7 TGTTTATAGATTTTAAGTAATCTCTTGTATTG 1 32 0 TTTTAGTATC 0.65295 -182 TTGTTTATGTTTTTTTGGGATAATTGAGAAGT 1 166 1 TTTTTGGATA 0.83886 -48 TGGCTTATCCTTTTTTGTTAAACCTTTCCTCT 2 29 0 TTTTTGTAAA 0.894413 -55 ATTGGTAGTATTTTTAGTAATATCTTCACTGG 4 108 1 TTTTTGTATA 0.956849 -179 TCAAATATTATTTTTGTTTAAAAGGAATATAA 5 211 0 TTTTTTTAAA 0.496774 -61 AAATTTTTGGTATTAAACATCAATT 7 4 1 TTTTTGTTTA 0.770929 -90 TTTATAAAAATTGTAGGGGAGAGTTTATGAGG 7 39 1 TTGTAGGAGA 0.297815 -55 GTTTTTATTGTTTTTAGTAAAACCTCAATAAT 9 50 1 TTTTTGTAAA 0.882426 -148 TTATTTTGGATTTTATATTATAT 11 2 0 TTTTAATATA 0.724436 -196 TTTTCATTTTTTTTATTTTATATATTATAATT 11 62 1 TTTTATTATA 0.647285 -136 GATAATAATATTGTAGGTAATACAAAATCAGG 12 72 1 TTGTAGTATA 0.851869 -199 TTTTTTATCATAAATTATAAAT 13 1 1 TTTTTATATA 0.787778 -170 CACCAACAAATTTTTAATTATAATTTATAATT 13 23 0 TTTTTATATA 0.787779 -148 AATTAAAAATTTGTTGGTGATATTGTGACAAA 13 36 1 TTGTTGTATA 0.890264 -135 GAATGTATCTTTTTTTGTTTAATGCTACTGCT 13 125 0 TTTTTGTTAA 0.561882 -46 ACAATAAATGTTTTAAGTTAGAATAAAAATAG 14 47 1 TTTTAGTAGA 0.833047 -38 AAAAATAGTTTTTTATGTGATAGT 14 71 1 TTTTAGTATA 0.940227 -14 ***** ** *** Masking position 4 Map Score: 11.8335 Number of sites scoring better than the average of aligned sites = 417 Number in coding regions = 290 Number in noncoding regions = 127 Number of orfs with sites within 600 bp upstream = 121 Fraction of orfs with sites within 600 bp upstream = 0.0194346 Motif number 8 TTCTTTGAGTTTTTTCACCTTATGACTTCT 3 160 0 TTTTTCACCT 0.923713 -44 ATATTTCATCTCATTTTTTTA 4 2 1 TATTTCATCT 0.767543 -285 TTTTTTCATATTTATCACCTTTAATGGTTG 4 67 0 TTTATCACCT 0.840447 -220 GTATTCTGATTTACACATCCAGAGAATAAG 4 141 0 TTACACATCC 0.68324 -146 TTTTCCACATTTTCTCACCTCAAATATTAT 5 232 0 TTTCTCACCT 0.950762 -40 GTGCAATAATTTTCACAACTTAGTAAAATT 6 30 1 TTTCACAACT 0.64531 -95 TTTTTCACCTGAAGGGTAGT 6 115 0 TTTTTCACCT 0.923713 -10 TTAATCACCCATATAAAACA 11 188 0 TTAATCACCC 0.606401 -10 CACTATATACTTATACATCTGAATATAAAC 12 34 1 TTATACATCT 0.621806 -237 TATTTCACCCTAAGACTTTT 12 261 0 TATTTCACCC 0.83783 -10 TTTGCCGCACTATCACATCTTAAAATAACT 13 71 0 TATCACATCT 0.792741 -100 TCTATCACATCCCTTTTTAAGA 14 3 1 TATCACATCC 0.758838 -82 ********** Masking position 7 Map Score: 5.55968 Number of sites scoring better than the average of aligned sites = 343 Number in coding regions = 291 Number in noncoding regions = 52 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 9 AGGGGTCTGTCCAACATGACGTTATAGGCATAAC 3 45 1 CCAATGGTTA 0.993428 -159 ATTCCCAAGTCCAACATGGAGTTATGCCTATAAC 3 65 0 CCAATGGTTA 0.993428 -139 TCCCAATGAACCCAGAGGGAGTTAAGGTTGATGA 3 98 0 CCAAGGGTTA 0.985528 -106 GTGACATATGCCAATATGTTGTTATCATCATGCT 5 37 1 CCAATGGTTA 0.993428 -235 TTCTTACACTACTATATGTAGTTAAAAAGATACA 6 72 1 ACAATGGTTA 0.96663 -53 ** * *** **** Masking position 6 Map Score: 3.6681 Number of sites scoring better than the average of aligned sites = 4 Number in coding regions = 0 Number in noncoding regions = 4 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185 Motif number 10 GGGAGTTAAGGTTGATGATTCCCAAGTCCA 3 86 0 GTTGATGATT 0.812439 -118 TTTTGAGTAGTTTGAACATTTTGAGCTGTT 4 174 0 TTTGAACATT 0.568805 -113 ACTTGGGTATTTTGCTGATTATTTTGAGTA 4 195 0 TTTGCTGATT 0.96087 -92 AAAAGGAAGATTTGTTGATTCAAATGAGAT 4 252 1 TTTGTTGATT 0.791615 -35 TCTTTGATTATTTTTGTGGTAA 7 82 0 TTTGATTATT 0.683605 -12 TTTATATAGCTTTGCATATTTTCACCAATT 10 21 0 TTTGCATATT 0.755115 -207 ATTAATCAATTTTGCTGATTTACAATCTTA 11 99 0 TTTGCTGATT 0.96087 -99 TTTAACCTAATTTGCTAATTCAATTAATCA 11 121 0 TTTGCTAATT 0.706514 -77 TATCACTCACTTTGAAGATAGTTGATATAA 12 118 0 TTTGAAGATA 0.824829 -153 ACCTTCTTCTTTTGGAGATAGGGGTAATTA 12 149 0 TTTGGAGATA 0.796075 -122 ATTGTAAATGTTTGCAGATATTAAAAGTCT 12 239 1 TTTGCAGATA 0.902452 -32 TTAAAAATTTGTTGGTGATATTGTGACAAA 13 38 1 GTTGGTGATA 0.650657 -133 ********** Masking position 8 Map Score: 6.84683 Number of sites scoring better than the average of aligned sites = 356 Number in coding regions = 282 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 73 Fraction of orfs with sites within 600 bp upstream = 0.011725 Motif number 11 ACATTATTTTTTATTTATTTTGTATTTTTGA 1 128 1 TATTTATTTT 0.697718 -86 GATAATTGAGAAGTTTATTTTAAAGGGAAGT 1 184 1 AGTTTATTTT 0.844855 -30 TTCATCTCATTTTTTTATTTTTTATTGTAAA 4 15 1 TTTTTATTTT 0.964255 -272 ACACCATAAATATTTTATTTTTTTGTTA 5 8 0 TTTTTATTTT 0.964255 -264 TATAAGCTTTACTGTTATTTTTGTTATTACT 5 185 0 ATGTTATTTT 0.788967 -87 TCTCACCTCAAATATTATTTTTGTTTAAAAG 5 219 0 ATATTATTTT 0.707174 -53 ATTTTTTATTTTCATGGTTGTG 6 2 1 TTTTTATTTT 0.964255 -123 TCTTTGATTATTTTTGTGGTAAAT 7 80 0 TGATTATTTT 0.580479 -14 AAGTATGATAACTTTTGTTTTTATTGTTTTT 9 34 1 ATTTTGTTTT 0.642443 -164 GTAACGAGTCTGTTTTATTCTGAATACTTAC 10 103 1 TTTTTATTCT 0.847755 -125 TCATTTTTATTGTTTTATTTTAATATACTGC 10 151 1 TTTTTATTTT 0.964255 -77 TACTGCTGTTTTTTGTATTTTTAATGTTGTG 10 176 1 TTTGTATTTT 0.740965 -52 TTAAAAATTAAAGGTTATTTTGGATTTTATA 11 17 0 AGGTTATTTT 0.559656 -181 TAACCTTTAATTTTTAATTTTATCTTTTATT 11 31 1 TTTTAATTTT 0.658702 -167 TTTAATTTTATCTTTTATTTTTTCATTTTTT 11 43 1 TTTTTATTTT 0.964255 -155 TTTTTTCATTTTTTTTATTTTATATATTATA 11 60 1 TTTTTATTTT 0.964255 -138 ATTAATTTTTATTTTTATTTTTGCACTATAT 12 11 1 ATTTTATTTT 0.941242 -260 TACATTAAAATCTTTTCTTTTTCATTGTATA 12 191 0 TTTTTCTTTT 0.751598 -80 ATAAAAAACTATTTTTATTCTAACTTAAAAC 14 56 0 ATTTTATTCT 0.7678 -29 * ********* Masking position 8 Map Score: 25.5924 Number of sites scoring better than the average of aligned sites = 567 Number in coding regions = 327 Number in noncoding regions = 240 Number of orfs with sites within 600 bp upstream = 188 Fraction of orfs with sites within 600 bp upstream = 0.030196 Motif number 12 ATGTCACACCATAAATATTTTATTTTTTTG 5 14 0 ATAAATATTT 0.70674 -258 GTGTAAGAAAACAAATATATAAATTTTACT 6 51 0 ACAAATATAT 0.781112 -74 ATAATTATATATTTAAATTT 9 1 1 ATAATTATAT 0.942956 -197 ATTCAGATGTATAAGTATATAGTGCAAAAA 12 28 0 ATAAGTATAT 0.887057 -243 CCTATAAAAGATAATAATATTGTAGGTAAT 12 63 1 ATAATAATAT 0.755546 -208 ATTTATCATAATAATTATATCAACTATCTT 12 104 1 ATAATTATAT 0.942956 -167 TTTTCATTGTATAAATATATTTTTGACCTT 12 174 0 ATAAATATAT 0.914145 -97 AACATTTATTGTAATTATATATAATTTCTT 14 29 0 GTAATTATAT 0.82333 -56 ********** Masking position 4 Map Score: 3.03926 Number of sites scoring better than the average of aligned sites = 135 Number in coding regions = 87 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 13 ********** No masking Map Score: 1.40931e-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 ********** No masking Map Score: 1.40931e-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 15 ********** No masking Map Score: 1.40931e-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