AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00252_mjan_reg_100.orf -o00252_mjan_100.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 MJ0002 300 M. jannaschii predicted coding region MJ0002 #2 MJ0020 300 asparaginase (ansA) #3 MJ0050 109 group II decarboxylase #4 MJ0429 167 argininosuccinate synthetase (argG) #5 MJ0561 281 adenylosuccinate synthetase (purA) #6 MJ0564 300 alanyl-tRNA synthetase (alaS) #7 MJ0684 68 aspartate aminotransferase (aspB2) #8 MJ0791 300 argininosuccinate lyase (argH) #9 MJ0929 300 adenylosuccinate lyase (purB) #10 MJ1054 300 UDP-glucose dehydrogenase, putative #11 MJ1116 136 asparagine synthetase (asnB) #12 MJ1404 300 M. jannaschii predicted coding region MJ1404 #13 MJ1405 47 M. jannaschii predicted coding region MJ1405 #14 MJ1406 89 aspartate carbamoyltransferase regulatory chain (pyrI) #15 MJ1479 259 putative aminotransferase #16 MJ1555 150 aspartyl-tRNA synthetase (aspS) #17 MJ1581 260 aspartate carbamoyltransferase catalytic chain (pyrB) Motif number 1 CAGTAGCACTAAATATAATATATCCAATCA 1 64 1 AAATATAATA 0.799422 -237 ACCAATTATAAAAAATTATATAAAAAATTA 1 210 1 AAAAATTATA 0.944533 -91 AAATTATATAAAAAATTACATAAGTCCTAT 1 222 1 AAAAATTACA 0.845283 -79 TTAATATTTGCAAAATAAAAAGTGGCGTCA 2 179 0 CAAAATAAAA 0.855793 -122 TTTAAATATATAAATTAATATTTGCAAAAT 2 193 0 TAAATTAATA 0.772703 -108 TTTAAATATAAAAATTTATATGATAGCTAT 2 217 1 AAAATTTATA 0.873684 -84 ATTAGGGTATAAAAATTATAAAAAGATAGC 2 242 0 AAAAATTATA 0.944533 -59 TCTTAGGTATAAATATAATACAATATACTA 3 33 0 AAATATAATA 0.799422 -77 ACATCATGATTAAATTTATAAGTATTTAAT 3 67 0 TAAATTTATA 0.845768 -43 TATCAACTAAAAAAATTAAAGG 3 98 1 AAAAATTAAA 0.932586 -12 ATATCTTACATAAAATTATAAATCCTTAAA 4 124 0 TAAAATTATA 0.930373 -44 AATTAACTTTAAATATTACAATTACAAAAA 5 244 1 AAATATTACA 0.673473 -38 CTTTCTTATGAAAATTAATATTTAAATATA 6 153 1 AAAATTAATA 0.810884 -148 ATATAACTTATAAAATTATAGCTACTTACC 6 178 1 TAAAATTATA 0.930373 -123 ATGTATCTCACAAATTAATAAAATTTATTT 6 212 1 CAAATTAATA 0.74793 -89 GCACCATACAAAAAATTAAAGAATAGTTGG 8 38 0 AAAAATTAAA 0.932586 -263 AAAATTCTAATAAGTTAAAAATTTTAACAT 8 154 0 TAAGTTAAAA 0.461274 -147 TTTTTTGATATAAAATTATAAAATAGTTAA 8 225 0 TAAAATTATA 0.930373 -76 TCAAAAAATGAAATATAACATAATCAATAT 8 247 1 AAATATAACA 0.561134 -54 TTTTGAAAATAAAAATTAAATAATTATCTA 9 12 0 AAAAATTAAA 0.932586 -289 AACCAAACAACAAAATTAAAAATCCTAAAA 9 187 1 CAAAATTAAA 0.90542 -114 TTTATTATCACAAGATTAAAGAGGTTTTAA 10 14 1 CAAGATTAAA 0.748001 -287 CCCTCAGACATAAAATTACAGCTAAATAAA 10 216 0 TAAAATTACA 0.812438 -85 AGAAATATAATAATATTATACAATTATTAA 10 259 1 TAATATTATA 0.835623 -42 ATATCTTAATAAAGATTAAATCAATTTATT 11 35 0 AAAGATTAAA 0.810941 -102 TTAAGATATTTAAATTAAAATTTTGCAAAT 11 56 1 TAAATTAAAA 0.734145 -81 TTGTGTTAGCTAATATTAAAAAATAAGGTA 11 106 1 TAATATTAAA 0.80547 -31 AATAATTTTATATATTTTTTAT 12 3 1 TAATTTTATA 0.674294 -298 ATAACCTACACAAATTAATAAAAAATATAT 12 20 0 CAAATTAATA 0.74793 -281 ACTGCATAAGTAATATAATATACATAATAA 12 46 0 TAATATAATA 0.759487 -255 TATATCATGCCAAAATAATATATAAATCTT 12 75 1 CAAAATAATA 0.879601 -226 TATTTGTTTAAAAATTAATATTTGAGTAAT 12 125 0 AAAATTAATA 0.810884 -176 ATTTTCCTAACAATATTAAAGAAAACTTTA 12 181 0 CAATATTAAA 0.783268 -120 GTTAAACTTTAAATATTAAATGTGATATAA 12 253 1 AAATATTAAA 0.839292 -48 AATATATTATTAAAATTAAAAGGAA 13 6 0 TAAAATTAAA 0.91644 -42 AAATAATAATAAAATAATAAAAAATATAT 13 29 0 TAAAATAATA 0.893038 -19 TTAAAATTTAAAGCTTTTGTTC 14 78 0 AAAATTTAAA 0.848906 -12 TTTTAAGAGTAAAGTTTATATACTACTGGG 15 181 1 AAAGTTTATA 0.681997 -79 AAAATAATTAAAAAATTAAAT 16 2 0 AAAAATTAAA 0.932586 -149 TAAAATTGTCAAAAATAAAAAATAATTAAA 16 20 0 AAAAATAAAA 0.89557 -131 TTTTAACCTATAAAATTAAATATATAGATA 16 45 1 TAAAATTAAA 0.91644 -106 GTGTGTCTTTCAAGATAATAATTTGCTAAT 17 160 0 CAAGATAATA 0.693748 -101 ********** Masking position 6 Map Score: 45.5616 Number of sites scoring better than the average of aligned sites = 1823 Number in coding regions = 1188 Number in noncoding regions = 635 Number of orfs with sites within 600 bp upstream = 457 Fraction of orfs with sites within 600 bp upstream = 0.0734019 Motif number 2 CAAACAATCCAAATAAACCTTTAATTAACTAAAC 1 103 1 AAATAAATAA 0.684708 -198 TACCAATTATAAAAAATTATATAAAAAATTACAT 1 209 1 AAAAAATTAA 0.837188 -92 ATTTTGGAGATATTAAAAATCCAATAGC 1 283 1 TATTAAATAA 0.821275 -18 AAGTTCCTTAATATATTTAAATTGCATTCAA 2 8 1 TTAATATTAA 0.809298 -293 ACTTCGCAGGAATAAAATCTTTAAAGGAAAGTTT 2 48 0 AATAAAATAA 0.743032 -253 TTGAGGTAAGTATATATACTTAAAGCTACTTAAT 2 86 1 TATATATTAA 0.876161 -215 CTGACGCCACTTTTTATTTTGCAAATATTAATTT 2 178 1 TTTTTATTAA 0.776018 -123 CAAATATTAATTTATATATTTAAATATAAAAATT 2 199 1 TTTATATTAA 0.800036 -102 GATTAGGGTATAAAAATTATAAAAAGATAGCTAT 2 239 0 TAAAAATTAA 0.92103 -62 TAAGAATCAGTTTTTAAGGTGGAACG 2 285 1 TTTTTAATAA 0.676478 -16 AATTAAACCTCAAATAAATGTTTA 3 1 1 AATTAAATAA 0.669255 -109 TTCTTAGGTATAAATATAATACAATATACTAAAC 3 30 0 TAAATATTAA 0.883629 -80 ATAGGTGAGTTATATATACTCCAAAACTATAAGC 4 74 1 TATATATTAA 0.876162 -94 TACATAAAATTATAAATCCTTAAACTTTTTGTAT 4 114 0 TATAAATTAA 0.915827 -54 ATGATAAATAATTTAAACCTTCAAATAATAAACC 5 36 0 ATTTAAATAA 0.586094 -246 TATTTTGGAATATAAATAGTATAACATAGATAAA 5 150 0 TATAAATTAA 0.91567 -132 TTTATAGTTCTATATATTTTGGAATATAAATAGT 5 164 0 TATATATTAA 0.876162 -118 TATAGAACTATAAAAAACTTATAATAACTTACTT 5 184 1 TAAAAAATAA 0.875495 -98 ATTAATTAACTTTAAATATTACAATTACAAAAAA 5 241 1 TTTAAATTAA 0.836555 -41 TTCTTATGAAAATTAATATTTAAATATAACTTAT 6 155 1 AATTAATTAA 0.770087 -146 TATGAACCACTTAAAATGTTTTAAGAGGTCTTGA 6 241 1 TTAAAATTAA 0.835495 -60 TATAATTTACTATTTAACTTTAAATCATAATATA 8 119 0 TATTTAATAA 0.749247 -182 AATAGTAAATTATATATGTTAAAATTTTTAACTT 8 139 1 TATATATTAA 0.876161 -162 TTATTAGAATTTTTAATAATAAAACAATTATAAC 8 171 1 TTTTAATTAA 0.81877 -130 TAATTTACTTTTTTAAAGTTATAATTGTTTTATT 8 188 0 TTTTAAATAA 0.728476 -113 ATATAAAATTATAAAATAGTTAAAAATAATTTAC 8 214 0 ATAAAATTAA 0.782351 -87 AATAAAAATTAAATAATTATCTAA 9 1 0 AAATAATTAA 0.782532 -300 AATTATTTAATTTTTATTTTCAAAAATCTGAATA 9 17 1 TTTTTATTAA 0.775838 -284 AAAGGATTTTTATTTAATTTCTAAGGGTTTGCTG 9 85 0 TATTTAATAA 0.749248 -216 TTTGAACTAATTAATAACTTCTAAATGCTCTTAT 9 116 1 TTAATAATAA 0.762289 -185 ACAACAAAATTAAAAATCCTAAAACCCAAATAAT 9 193 1 TAAAAATTAA 0.921118 -108 TAAAACCCAAATAATAAATTATAAACAGACTTCT 9 212 1 ATAATAATAA 0.585325 -89 ATGCTTTTTTAAATAAACATCAAACTATAAAAAT 9 264 1 AAATAAATAA 0.684708 -37 AAATTACAGCTAAATAAACTCCAAAATAAACTAC 10 200 0 TAAATAATAA 0.820871 -101 GTTTATTTATTAATAATTGTATAATATTATTATA 10 264 0 TAATAATTAA 0.890876 -37 TTTAAAACCTCTAAGGTTATTTAT 11 1 1 TTTAAAATAA 0.821272 -136 TTAAATATCTTAATAAAGATTAAATCAATTTATT 11 35 0 TAATAAATAA 0.831413 -102 GATATTTAAATTAAAATTTTGCAAATATTTAGCA 11 60 1 TTAAAATTAA 0.890537 -77 CACAAATTAATAAAAAATATATAAAATTATT 12 8 0 TAAAAAATAA 0.875645 -293 ATATCATGCCAAAATAATATATAAATCTTACGAT 12 76 1 AAAATAATAA 0.668646 -225 TATTTGAGTAATAATATTTTTTAAAAAATCGTAA 12 103 0 ATAATATTAA 0.700479 -198 ATTACTCAAATATTAATTTTTAAACAAATAATGA 12 125 1 TATTAATTAA 0.862694 -176 ATTTTTAAACAAATAATGATAAAAGATATTTTAA 12 140 1 AAATAATTAA 0.782532 -161 AAAAGATATTTTAAAATATTTTAAAGTTTTCTTT 12 160 1 TTAAAATTAA 0.494056 -141 TCACATTTAATATTTAAAGTTTAACAGCAGTTAC 12 244 0 TATTTAATAA 0.749248 -57 AAAAATATATTATTAAAATTAAAAGGAA 13 5 0 TATTAAATAA 0.798656 -43 AAATAATAATAAAATAATAAAAAATATATTAT 13 26 0 ATAAAATTAA 0.782406 -22 GAAACACAAATAAAAATGCTAAAAATATTAGAGA 14 39 1 TAAAAATTAA 0.921118 -51 GTTCTATTTTTTTATATGTTTGAAGTGTTATATA 15 143 0 TTTATATTAA 0.831959 -117 TGTCAAAAATAAAAAATAATTAAAAAATTAAAT 16 10 0 AAAAAATTAA 0.837188 -141 ATTTTATAGGTTAAAATTGTCAAAAATAAAAAAT 16 27 0 TTAAAATTAA 0.890759 -124 TTTTTAAGGTTAATAATTGTGTAAATGGTTTTTA 16 95 0 TAATAATTAA 0.890968 -56 CTTATATGGTATAAAAAGCTGTAAAGTCCTTTGT 17 26 0 ATAAAAATAA 0.684708 -235 CAGAAATAAAATTTTATGATTGAATAAAGATGCC 17 76 0 ATTTTATTAA 0.604065 -185 AATTAGCAAATTATTATCTTGAAAGACACACAAT 17 159 1 TTATTATTAA 0.788062 -102 TCAAACCTCATATATATGCTTTAATAGGGATAAT 17 236 1 TATATATTAA 0.876162 -25 ******* * ** Masking position 6 Map Score: 72.0583 Number of sites scoring better than the average of aligned sites = 2513 Number in coding regions = 1729 Number in noncoding regions = 784 Number of orfs with sites within 600 bp upstream = 515 Fraction of orfs with sites within 600 bp upstream = 0.0827176 Motif number 3 TCAAAATACCAATTATAAAAAATTATATAAA 1 203 1 ATTATAAAAA 0.947404 -98 TTATAAAAAATTATATAAAAAATTACATAAG 1 215 1 TATATAAAAA 0.407492 -86 ATAATTTTGGAGATATTAAAAATCCAATAGC 1 280 1 AATATTAAAA 0.54095 -21 TTTTATATTTAAATATATAAATTAATATTTG 2 199 0 AATATATAAA 0.562905 -102 TTATATATTTAAATATAAAAATTTATATGAT 2 210 1 AATATAAAAA 0.947404 -91 AGGGTATAAAAATTATAAAAAGATAGCTATC 2 238 0 ATTATAAAAA 0.947404 -63 GATGTTTATCAACTAAAAAAATTAAAGG 3 92 1 ACTAAAAAAA 0.317708 -18 ATAAGCAATAAAATACAAAAAGTTTAAGGAT 4 102 1 AATACAAAAA 0.919242 -66 ATTTTATGTAAGATATAAAAATATTTTGTGA 4 138 1 AATATAAAAA 0.947404 -30 AAATATATAGAACTATAAAAAACTTATAATA 5 179 1 ACTATAAAAA 0.903401 -103 ACTATAAAAAACTTATAATAACTTACTTGCC 5 190 1 ATTATAATAA 0.634739 -92 TAAATATTACAATTACAAAAAAATATAAGGT 5 253 1 ATTACAAAAA 0.919242 -29 AGGCAAATTCATATACAAACATTTTTGTCTT 6 122 1 AATACAAACA 0.63326 -179 TTTAAATATAACTTATAAAATTATAGCTACT 6 173 1 ATTATAAAAT 0.548075 -128 AGGTCTTGAAAGATACTAAAAACTGCAATCA 6 266 1 AATACTAAAA 0.426824 -35 GACATCACCATTTATAAACACTAAAAGGAA 7 49 0 ATTATAAACA 0.732077 -20 AATAGGGGCACCATACAAAAAATTAAAGAAT 8 44 0 CATACAAAAA 0.542425 -257 TTTGATATAAAATTATAAAATAGTTAAAAAT 8 221 0 ATTATAAAAT 0.548075 -80 TTTAATTTTTATTTTCAAAAATCTGAATAAT 9 22 1 ATTTCAAAAA 0.426809 -279 CCAAATAATAAATTATAAACAGACTTCTATA 9 218 1 ATTATAAACA 0.732084 -83 ATAAACATCAAACTATAAAAATCATTAGCAA 9 276 1 ACTATAAAAA 0.903401 -25 GATGTAAGAGAAATATAATAATATTATACAA 10 251 1 AATATAATAA 0.634739 -50 CTCTAAGGTTATTTATAATAAATTGATTTAA 11 19 1 ATTATAATAA 0.634733 -118 AAAATAAGGTATATTTAAAAAT 11 125 1 AATTTAAAAA 0.540943 -12 AATTAATAAAAAATATATAAAATTATT 12 7 0 AATATATAAA 0.562905 -294 ATACATAATAACCTACACAAATTAATAAAAA 12 26 0 ACTACACAAA 0.487701 -275 ATAATAATAAAATAATAAAAAATATATTATT 13 25 0 ATAATAAAAA 0.634739 -23 TAAAAGAAACACAAATAAAAATGCTAAAAAT 14 34 1 AAAATAAAAA 0.634739 -56 TAGAAAAGGCACTTATAAAACCAAAGACTTT 15 77 0 ATTATAAAAC 0.504789 -183 ACTTATAGTGCGTTACAAAAAACTTACTATA 15 106 0 CTTACAAAAA 0.542425 -154 AACACTTCAAACATATAAAAAAATAGAACTC 15 148 1 AATATAAAAA 0.947404 -112 GATAATGGTAAATTACACAAAAGTGTCATAC 15 210 1 ATTACACAAA 0.647094 -50 TAAAATTGTCAAAAATAAAAAATAATTAAAA 16 19 0 AAAATAAAAA 0.634739 -132 TTAAATATATAGATACACAAAAGCTTAGGAA 16 60 1 AATACACAAA 0.647094 -91 AAGCTTAGGAAACTATAAAAACCATTTACAC 16 80 1 ACTATAAAAA 0.903401 -71 TATAAAAAAGATTTATAAAAATTTTGGAGAA 17 196 0 ATTATAAAAA 0.947395 -65 TTGATAGAGTATTTATAAAAAAGATTTATAA 17 209 0 ATTATAAAAA 0.947395 -52 * ********* Masking position 5 Map Score: 34.851 Number of sites scoring better than the average of aligned sites = 553 Number in coding regions = 383 Number in noncoding regions = 170 Number of orfs with sites within 600 bp upstream = 183 Fraction of orfs with sites within 600 bp upstream = 0.0293929 Motif number 4 CTGGGATTGGTGAAAACCATTATCAACAAACCATGGGAA 1 11 1 TAAACAAACA 0.648416 -290 ATACCAATTATAAAAAATTATATAAAAAATTACATAAGT 1 208 1 TAAATAAAAA 0.53878 -93 TAAGTCCTATTATAAAATACTACCAATTAGAATTTCTAA 1 242 1 TAAATAAATA 0.95214 -59 TTTAATATCTCCAAAATTATTAGAAATTCTAATTGGTAG 1 261 0 CAAATAAATC 0.71695 -40 ACCTATTATATATAAACTGCTAATAATAACTGTCAATAA 4 41 0 TAAATAAATA 0.952135 -127 TATATATACTCCAAAACTATAAGCAATAAAATACAAAAA 4 84 1 CAAATAAATA 0.945154 -84 CAATAAAATACAAAAAGTTTAAGGATTTATAATTTTATG 4 107 1 CAAATAATTA 0.920665 -61 ATGGTTCTTTTCAAAACTAATAAAATCTATTTATGAGTA 5 83 1 TAAATAATCA 0.757528 -199 TGCCATACATTGGAAATTCTTAATATTAATTAACTTTAA 5 217 1 TAAATAATTA 0.928703 -65 AGTTTAGAATTTGAAAATAAGAGCATTTAGGAATTATTT 6 18 0 TAAATAATTA 0.930521 -283 CCATGTATCTCACAAATTAATAAAATTTATTTATGAACC 6 210 1 CAAATAATTA 0.920666 -91 TGAAAGATACTAAAAACTGCAATCATTAAAGGTGATGGG 6 272 1 TAAATAATTA 0.930449 -29 TATGCCACCACGAAAAGTATTATTAATTAATAATAATTC 7 13 1 CAAATAAATA 0.945153 -56 TCACCATTTATAAACACTAAAAGGAATTATTATTAATTA 7 36 0 TACATAAATA 0.613738 -33 ATTACATTTGTGAAAAATGTGGAAAATAATAGGGGCACC 8 63 0 TAAATGAATA 0.60414 -238 GTTTTATTATTAAAAATTCTAATAAGTTAAAAATTTTAA 8 157 0 TAAATAAGTA 0.716148 -144 TTTTTATTTTCAAAAATCTGAATAATTCAATAAACTTAA 9 27 1 CAAACAATTA 0.821792 -274 TCAATAAACTTAAATATTCTAAATAATCAAACCAGCAAA 9 53 1 TATATAAATA 0.513095 -248 TGTTTGGATTTTGAAAATAAGAGCATTTAGAAGTTATTA 9 127 0 TAAATAATTA 0.930521 -174 AATTAAAAATCCTAAAACCCAAATAATAAATTATAAACA 9 200 1 CAAACAAATA 0.872576 -101 CATCAAACTATAAAAATCATTAGCAATTAA 9 281 1 TAAACAAATA 0.887709 -20 GTATTGATAACGAAAATTATAAGTAATGCTATATTTACA 10 145 1 CAAATAAATC 0.71695 -156 TAATATTTTTTAAAAAATCGTAAGATTTATATATTATTT 12 87 0 TAAATAATTA 0.930449 -214 CTTTTAACAGAAATTTTGATGATTGATATTATATCA 12 275 0 CAAATAATTA 0.920666 -26 CAGTTAATTTTGAAAAGCACGATAAACGATAATTCCCTA 15 16 0 TAAACAAACA 0.648416 -244 ATTTTATAGGTTAAAATTGTCAAAAATAAAAAATAATTA 16 22 0 TAAATAAATA 0.952139 -129 * *** * * *** * Masking position 6 Map Score: 31.1955 Number of sites scoring better than the average of aligned sites = 365 Number in coding regions = 231 Number in noncoding regions = 134 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 5 AAATACCAATTATAAAAAATTATATAAAAAAT 1 206 1 TATAAAATTA 0.808888 -95 TAAAAAATTATATAAAAAATTACATAAGTCCT 1 218 1 TATAAAATTA 0.808888 -83 ATAGCTATCATATAAATTTTTATATTTAAATA 2 215 0 TATAAATTTA 0.69251 -86 TGATTAAATTTATAAGTATTTAATGCGTTCTT 3 59 0 TATAAGTTTA 0.765357 -51 ATGTAAGATATAAAAATATTTTGTGAGGGATT 4 143 1 TAAAAATTTT 0.78887 -25 TCAAAACTAATAAAATCTATTTATGAGTAAAT 5 93 1 TAAAATATTT 0.849758 -189 AGTAAGTTATTATAAGTTTTTTATAGTTCTAT 5 185 0 TATAAGTTTT 0.795649 -97 TACAAAAAAATATAAGGTTTTGAACA 5 266 1 TATAAGTTTG 0.728519 -16 TGAATTTGCCTATAATCTATTGTAGGTTTGGA 6 101 0 TATAATATTG 0.758402 -200 CACAAATTAATAAAATTTATTTATGAACCACT 6 220 1 TAAAATATTT 0.849859 -81 ATGAACCACTTAAAATGTTTTAAGAGGTCTTG 6 242 1 TAAAATTTTA 0.681971 -59 TTATAAACACTAAAAGGAATTATTATTAATTA 7 36 0 TAAAAGATTA 0.872157 -33 TTTTTAAAGTTATAATTGTTTTATTATTAAAA 8 181 0 TATAATTTTT 0.73104 -120 ATAAAATAGTTAAAAATAATTTACTTTTTTAA 8 206 0 TAAAAAATTT 0.862733 -95 TAAACACGATTAAAATGCATTGGTGAAATA 8 281 1 TAAAATATTG 0.796094 -20 GAAGTCTGTTTATAATTTATTATTTGGGTTTT 9 213 0 TATAATATTA 0.792301 -88 AACAGACTTCTATAAGTAATTTTCTGAAAATG 9 235 1 TATAAGATTT 0.86755 -66 CATCAAACTATAAAAATCATTAGCAATTAA 9 281 1 TAAAAAATTA 0.840022 -20 TAAGGTTATTTATAATAAATTGATTTAATCTT 11 22 1 TATAATATTG 0.758407 -115 TACGATTTTTTAAAAAATATTATTACTCAAAT 12 104 1 TAAAAAATTA 0.815129 -197 CAAATAATGATAAAAGATATTTTAAAATATTT 12 149 1 TAAAAGATTT 0.890341 -152 AAAGATATTTTAAAATATTTTAAAGTTTTCTT 12 161 1 TAAAATTTTA 0.465937 -140 GGTAAGAATATAAAAGTCTTTGGTTTTATAAG 15 65 1 TAAAAGTTTG 0.769149 -195 TAGGAAACTATAAAAACCATTTACACAATTAT 16 85 1 TAAAAAATTT 0.862732 -66 CCCAAATCACTAAAAACTTTTTAAGGTTAATA 16 114 0 TAAAAATTTT 0.756232 -37 TTTTATACCATATAAGGAATTTTGATGCCAAA 17 44 1 TATAAGATTT 0.86755 -217 AGAGTATTTATAAAAAAGATTTATAAAAATTT 17 203 0 TAAAAAATTT 0.862734 -58 ****** **** Masking position 5 Map Score: 30.4822 Number of sites scoring better than the average of aligned sites = 883 Number in coding regions = 663 Number in noncoding regions = 220 Number of orfs with sites within 600 bp upstream = 228 Fraction of orfs with sites within 600 bp upstream = 0.0366206 Motif number 6 TGATAATGGTTTTCACCAATCCCAG 1 6 0 TTTCACCAAT 0.950112 -295 GTTCTCAATGTTTCTCTAATTGGACAACCA 1 158 1 TTTCTCTAAT 0.832879 -143 AACCATATAATTTCACAAAATGATAAATAA 5 59 0 TTTCACAAAA 0.904848 -223 CTACCATGTATCTCACAAATTAATAAAATT 6 207 1 TCTCACAAAT 0.82117 -94 TTTCCACATTTTTCACAAATGTAATAATAC 8 77 1 TTTCACAAAT 0.963962 -224 TATTTCACCAATGCATTTTAAT 8 289 0 TTTCACCAAT 0.950112 -12 TAATTTTTATTTTCAAAAATCTGAATAATT 9 24 1 TTTCAAAAAT 0.657445 -277 AAAAATATTATTACTCAAATATTAATTTTT 12 116 1 TTACTCAAAT 0.779423 -185 TTTGTTCAATTTTCTCTAATATTTTTAGCA 14 55 0 TTTCTCTAAT 0.832879 -35 TAATGGTAAATTACACAAAAGTGTCATACA 15 212 1 TTACACAAAA 0.680587 -48 ACATCATGTGTTTCCCAAATCACTAAAAAC 16 129 0 TTTCCCAAAT 0.876612 -22 CACACAATATTTTCTCCAAAATTTTTATAA 17 185 1 TTTCTCCAAA 0.799675 -76 ********** Masking position 8 Map Score: 8.58927 Number of sites scoring better than the average of aligned sites = 143 Number in coding regions = 121 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 7 GATAAACATCATGATTAAATTTATAAGTATT 3 71 0 ATATTAAATT 0.592242 -39 AAATCTATTTATGAGTAAATTTGAACTCCTT 5 105 1 ATAGTAAATT 0.943261 -177 ACAATAGATTATAGGCAAATTCATATACAAA 6 110 1 ATGGCAAATT 0.666311 -191 TAAGTGGTTCATAAATAAATTTTATTAATTT 6 223 0 ATAATAAATT 0.719193 -78 TTTAAAGTTAAATAGTAAATTATATATGTTA 8 129 1 AAAGTAAATT 0.94326 -172 ATAACTTTAAAAAAGTAAATTATTTTTAACT 8 200 1 AAAGTAAATT 0.943261 -101 CTAAAACCCAAATAATAAATTATAAACAGAC 9 211 1 AAAATAAATT 0.719192 -90 ACAGACTTCTATAAGTAATTTTCTGAAAATG 9 236 1 ATAGTAATTT 0.658185 -65 ATTTCCAAGTAATAGTAAATTCGATACGGTT 10 48 1 AAAGTAAATT 0.94326 -253 ACTCTATTTTAAGAGTAAAGTTTATATACTA 15 175 1 AAAGTAAAGT 0.740524 -85 CTACTGGGATAATGGTAAATTACACAAAAGT 15 203 1 AAGGTAAATT 0.852105 -57 GGAGGTGTAAATTAGCAAATTATTATCTTGA 17 150 1 ATAGCAAATT 0.852106 -111 ** ******** Masking position 7 Map Score: 7.24417 Number of sites scoring better than the average of aligned sites = 117 Number in coding regions = 82 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 8 CGTCAACAAACAATCCAAATAAACCTTTAAT 1 97 1 CAATCCAATA 0.846894 -204 GTTCGCCCATCAATCATCATAGCTCAGCAGC 2 148 0 CAATCATATA 0.772214 -153 TGTCAATAATCAATCTAAATAGAAATTTTTG 4 19 0 CAATCTAATA 0.488809 -149 ATAAAATTATAAATCCTTAAACTTTTTGTAT 4 114 0 AAATCCTAAA 0.640771 -54 TCCAACAAGACAATCCATAAACCAAACAACA 6 59 1 CAATCCAAAA 0.944696 -242 ATCCATAAACCAAACAACAAAATCAGAAATT 6 71 1 CAAACAAAAA 0.868862 -230 TCAGAAATTCCAAACCTACAATAGATTATAG 6 93 1 CAAACCTCAA 0.784606 -208 CTAAAAACTGCAATCATTAAAGGTGATGGG 6 281 1 CAATCATAAA 0.912809 -20 TCTAAATAATCAAACCAGCAAACCCTTAGAA 9 70 1 CAAACCACAA 0.764783 -231 TTCAACAAGACAATCCATTAACCAAACAACA 9 168 1 CAATCCATAA 0.74777 -133 ATCCATTAACCAAACAACAAAATTAAAAATC 9 180 1 CAAACAAAAA 0.868862 -121 ACAAAATTAAAAATCCTAAAACCCAAATAAT 9 196 1 AAATCCTAAA 0.640771 -105 AAATAAACATCAAACTATAAAAATCATTAGC 9 274 1 CAAACTAAAA 0.676763 -27 GATATAATATCAATCATCAAAATTTCTGTTA 12 276 1 CAATCATAAA 0.912809 -25 TATAACACTTCAAACATATAAAAAAATAGAA 15 145 1 CAAACATTAA 0.562987 -115 CATCTTTATTCAATCATAAAATTTTATTTCT 17 78 1 CAATCATAAA 0.912809 -183 AATACTCTATCAAACCTCATATATATGCTTT 17 227 1 CAAACCTATA 0.814603 -34 ******* *** Masking position 3 Map Score: 13.9728 Number of sites scoring better than the average of aligned sites = 319 Number in coding regions = 267 Number in noncoding regions = 52 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 9 AGTATTTTATAATAGGACTTATGTAATTTT 1 233 0 AATAGGACTT 0.760114 -68 TACTTACCTCAATAGGACTTCGCAGGAATA 2 68 0 AATAGGACTT 0.760114 -233 ATTTGAAAATAAGAGCATTTAGGAATTATT 6 19 0 AAGAGCATTT 0.840355 -282 AAAATGTTTTAAGAGGTCTTGAAAGATACT 6 253 1 AAGAGGTCTT 0.849754 -48 TATAAACACTAAAAGGAATTATTATTAATT 7 37 0 AAAAGGAATT 0.528936 -32 ATAATATATATAGAGGTTTTGTATTATTAC 8 97 0 TAGAGGTTTT 0.712117 -204 TTAATTAGTTCAAAGGATTTTTATTTAATT 9 100 0 CAAAGGATTT 0.854256 -201 TTTTGAAAATAAGAGCATTTAGAAGTTATT 9 128 0 AAGAGCATTT 0.840355 -173 GTTTATTTAAAAAAGCATTTTCAGAAAATT 9 252 0 AAAAGCATTT 0.760031 -49 CACAAGATTAAAGAGGTTTTAAATAGATTT 10 22 1 AAGAGGTTTT 0.856018 -279 TAAATAAACTCAGGGGATTTAA 10 289 1 CAGGGGATTT 0.731261 -12 TAAATAACCTTAGAGGTTTTAAA 11 4 0 TAGAGGTTTT 0.712117 -133 TTAAAATTTAAAGCTTTTGTTCAATTTT 14 72 0 TAAAGCTTTT 0.370686 -18 TTACTATAGAAAAGGCACTTATAAAACCAA 15 84 0 AAAGGCACTT 0.498698 -176 ACCCTATTGACAAAGGACTTTACAGCTTTT 17 17 1 CAAAGGACTT 0.864094 -244 GTTAGGGTATCACAGGACTTTCACAGAAAT 17 103 0 CACAGGACTT 0.661771 -158 ********** Masking position 2 Map Score: 5.69765 Number of sites scoring better than the average of aligned sites = 694 Number in coding regions = 589 Number in noncoding regions = 105 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 10 CAAACAATCCAAATAAACCTTTAATTAACTAA 1 103 1 AAATAAATTT 0.753592 -198 AAATACTACCAATTAGAATTTCTAATAATTTT 1 256 1 AATTAGATTC 0.81113 -45 ATTAAACCTCAAATAAATGTTTAGTATATTGT 3 12 1 AAATAAATTT 0.752942 -98 TAATCAATCTAAATAGAAATTTTTGGGGATAA 4 12 0 AAATAGATTT 0.817794 -156 TCTTACATAAAATTATAAATCCTTAAACTTTT 4 119 0 AATTATATCC 0.291873 -49 ATTTACTCATAAATAGATTTTATTAGTTTTGA 5 93 0 AAATAGATTA 0.699856 -189 TTTATGAGTAAATTTGAACTCCTTCCTAATGG 5 112 1 AATTTGATCC 0.243326 -170 CAAACAACAAAATCAGAAATTCCAAACCTACA 6 81 1 AATCAGATTC 0.430382 -220 AGTGGTTCATAAATAAATTTTATTAATTTGTG 6 220 0 AAATAAATTA 0.613333 -81 ATCATAATATATATAGAGGTTTTGTATTATTA 8 98 0 ATATAGATTT 0.216528 -203 AGATTTTTGAAAATAAAAATTAAATAATTATC 9 14 0 AAATAAATTA 0.613331 -287 CTTAGAAATTAAATAAAAATCCTTTGAACTAA 9 94 1 AAATAAATCC 0.881699 -207 CAAACAACAAAATTAAAAATCCTAAAACCCAA 9 190 1 AATTAAATCC 0.780632 -111 AATAAATTATAAACAGACTTCTATAAGTAATT 9 224 1 AAACAGATCT 0.490682 -77 ATGCTTTTTTAAATAAACATCAAACTATAAAA 9 264 1 AAATAAATCA 0.658946 -37 AAGAGGTTTTAAATAGATTTCCAAGTAATAGT 10 32 1 AAATAGATCC 0.91636 -269 AAGATATTTAAATTAAAATTTTGCAAATATTT 11 58 1 AATTAAATTT 0.593537 -79 AATAGAGCCAAATTAAACATTCACATTTCTTA 12 208 1 AATTAAATTC 0.744996 -93 AAAGAAACACAAATAAAAATGCTAAAAATATT 14 36 1 AAATAAATGC 0.491114 -54 ACATATAAAAAAATAGAACTCTATTTTAAGAG 15 158 1 AAATAGATCT 0.845585 -102 GTGTCATACAAAATAGAGTTCCATTTTGAGAT 15 232 1 AAATAGATCC 0.91636 -28 ACTTTCACAGAAATAAAATTTTATGATTGAAT 17 85 0 AAATAAATTT 0.75359 -176 ******* *** Masking position 10 Map Score: 13.9726 Number of sites scoring better than the average of aligned sites = 609 Number in coding regions = 453 Number in noncoding regions = 156 Number of orfs with sites within 600 bp upstream = 146 Fraction of orfs with sites within 600 bp upstream = 0.02345 Motif number 11 ********** No masking Map Score: 8.2021e-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 12 ********** No masking Map Score: 8.2021e-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: 8.2021e-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