AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00520_mtub_reg_100.orf -o00520_mtub_100.ace -a/home/amcguire/genomes/ORF_mtub.txt -z/home/amcguire/genomes/mtub.fna -g0.66 -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 = 0.66 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: rmlB2 22 rmlB2 Input sequences: #1 Rv0331 113 hypothetical protein Rv0331 #2 Rv0332 74 hypothetical protein Rv0332 #3 Rv0333 26 hypothetical protein Rv0333 #4 rmlA 29 rmlA #5 galE1 300 galE1 #6 galT' 128 galT' #7 galU 100 galU #8 glgX 38 glgX #9 Rv1565c 98 hypothetical protein Rv1565c #10 Rv1566c 239 hypothetical protein Rv1566c #11 rmlD 75 rmlD #12 Rv3463 253 hypothetical protein Rv3463 #13 rmlB 72 rmlB #14 mhpE 60 mhpE #15 epiB 155 epiB Motif number 1 AATATTAGATTCCGCCGCAGTCTTGCGCAA 1 55 0 TCCGCCGCAG 0.904969 -59 CACGCCGGTGGGCGCGGCCC 2 1 1 CACGCCGGTG 0.95596 -74 CACGCCGGTGGGCGCGGCCCCCTACCACGG 2 11 1 GGCGCGGCCC 0.959515 -64 GTGTTTCAGGGGCGCCGGTAGGAGCCGTGG 2 35 0 GGCGCCGGTA 0.928887 -40 GGTCGGCGAACGGCAGTTAGGAGCCA 4 7 1 CGAACGGCAG 0.647137 -23 GCCGCACGCGGCCGGAGTCCGCCT 5 5 1 CACGCGGCCG 0.968069 -296 ATTGCCAGATCGGTCAGGCGGACTCCGGCC 5 20 0 CGGTCAGGCG 0.557073 -281 GATCTGGCAATGCTCGGGCGCTGCCGGTTT 5 39 1 TGCTCGGGCG 0.864553 -262 ACGGAACACCAAACCGGCAGCGCCCGAGCA 5 49 0 AAACCGGCAG 0.553276 -252 CCGGACACTCTACCCGGGCGGTCGCACGGA 5 74 0 TACCCGGGCG 0.502032 -227 TACGGCTATCTGACCCGGACACTCTACCCG 5 88 0 TGACCCGGAC 0.652297 -213 CTGAACCCATGACCCCGCCATCTATACGGC 5 112 0 GACCCCGCCA 0.855146 -189 ACCCGGGTGCGACGCAGCAGCTTGCGATGC 5 179 0 GACGCAGCAG 0.855753 -122 TGCTGCGTCGCACCCGGGTGCAGCGCAGGA 5 190 1 CACCCGGGTG 0.495515 -111 ACCCGGGTGCAGCGCAGGAAACTGGGCAAA 5 201 1 AGCGCAGGAA 0.499578 -100 GTTGCGAGCAGACCCCGCCAGCTCGACCGT 5 234 1 GACCCCGCCA 0.855146 -67 ACGCGCTTGTAACGCCGCCGTTTCGCCTGG 5 265 1 AACGCCGCCG 0.935647 -36 GACAGCCTAACGGCCAGGCGAAACGGCGGC 5 278 0 CGGCCAGGCG 0.600021 -23 GGCGGCTCGCCGCGCCGCCGGGAGACGATG 6 15 0 CGCGCCGCCG 0.992159 -114 GGCGGCGCGGCGAGCCGCCCCAAAACCAAC 6 26 1 CGAGCCGCCC 0.959612 -103 CTGAGGTGGCGTCGCGGCCCTCACCGGCGA 6 82 1 GTCGCGGCCC 0.885317 -47 CCTCTGTGGTGTCGCCGGTGAGGGCCGCGA 6 93 0 GTCGCCGGTG 0.836549 -36 CGGATCGGCCCGAGATCCTCT 6 118 0 GGATCGGCCC 0.855649 -11 ACGATGACACAGCCCCGGCCGTCCCGCGCG 7 18 1 AGCCCCGGCC 0.894961 -83 TCCCGGCGCTCGCGCGGGACGGCCGGGGCT 7 28 0 CGCGCGGGAC 0.963745 -73 TCCCGCGCGAGCGCCGGGACAGCGCCAACG 7 39 1 GCGCCGGGAC 0.691454 -62 CGCCAACGAAGAGGCGGGCAATCAGCACGC 7 61 1 GAGGCGGGCA 0.817184 -40 GTTCACACGATAACCCGCAGCGTGCTGATT 7 80 0 TAACCCGCAG 0.552476 -21 CGCCTACACCCGCCGGAGAACCTGGATA 8 9 1 CCCGCCGGAG 0.973966 -30 GGCGAGAAAGCAAGCGGGACCG 9 3 0 CAAGCGGGAC 0.894759 -96 CGCGCGCTGAGCAGCGGGAAGCAGGAGGCG 9 42 0 GCAGCGGGAA 0.772203 -57 CTCAGCGCGCGAAGCAGGAGGCTGGTTTGG 9 61 1 GAAGCAGGAG 0.664882 -38 GCTCAATCTTTGATCGGCAGTTGTGATTTC 10 23 0 TGATCGGCAG 0.639142 -217 TCAAAGATTGAGCGCGGCAGTCACCGTCCG 10 40 1 AGCGCGGCAG 0.959345 -200 GCGGCAGTCACCGTCCGGTCACGTTACGGC 10 53 1 CCGTCCGGTC 0.397857 -187 GCCAGCTATGGACGCGGCCGGCATCTGTTG 10 105 1 GACGCGGCCG 0.974459 -135 GTCTGCCATTCCAGCCGGAAGTCACTTTAT 10 162 0 CCAGCCGGAA 0.750987 -78 GGTGGTGTGTGCCTCAGCACGTGACTTCAC 10 193 0 GCCTCAGCAC 0.421991 -47 CTCCTTGGCACTCTCGGGTGGTGTGTGCCT 10 209 0 CTCTCGGGTG 0.53239 -31 TCGGGTAGCCAACCCCGGCGTGCCCGAGGC 11 39 1 AACCCCGGCG 0.862776 -37 AGTCTGGCACGCCTCGGGCACGCCGGGGTT 11 49 0 GCCTCGGGCA 0.795052 -27 GAGCACGTGCTGCGCCGGAATCGGGTGCAC 12 42 0 TGCGCCGGAA 0.874928 -212 ACTACAAACGTGAGCCGGTGGTGGAAATTC 12 74 1 TGAGCCGGTG 0.806106 -180 ACGCCAAACCGGCACGGGACACCGCACCGC 12 138 1 GGCACGGGAC 0.794333 -116 CACGGGACACCGCACCGCCAACCCACATTA 12 150 1 CGCACCGCCA 0.692478 -104 TTGCTCTAACCGCTCGGCTCACCGGTGCTA 12 232 0 CGCTCGGCTC 0.851035 -22 AACCCAACTGGTCGCGGCTCCACTCGGTTA 13 31 1 GTCGCGGCTC 0.752983 -42 AATTCTTGGACGCGCGGCTGGTGTC 14 6 0 CGCGCGGCTG 0.95859 -55 AATTCATCAAGGATCCGGCAAGGGTGCGGG 14 32 1 GGATCCGGCA 0.720163 -29 CAGTGTCAGCCCGCACCCTTGCCGGA 14 45 0 CAGCCCGCAC 0.684627 -16 GTCGGCTATAGCCGCCGGAATAGTCC 15 7 0 GCCGCCGGAA 0.909199 -149 CCGCGTGAAAGAAGCCGGTCGGCTATAGCC 15 24 0 GAAGCCGGTC 0.799851 -132 TTGCGCGTGACGGGCCGCCGTTGATCTCAA 15 55 1 CGGGCCGCCG 0.969477 -101 GTTGATCTCAAGATCGGCTGGCAACGGCCG 15 74 1 AGATCGGCTG 0.455014 -82 CTGCCGCTGGTACGCGGCCGTTGCCAGCCG 15 88 0 TACGCGGCCG 0.94379 -68 CGGCCGCGTACCAGCGGCAGCATGGATTAG 15 98 1 CCAGCGGCAG 0.919401 -58 TGAGGCTCAGAGGGCGGGACGG 15 144 1 AGGGCGGGAC 0.79771 -12 ********** Masking position 5 Map Score: 73.7215 Number of sites scoring better than the average of aligned sites = 102458 Number in coding regions = 95803 Number in noncoding regions = 6655 Number of orfs with sites within 600 bp upstream = 1725 Fraction of orfs with sites within 600 bp upstream = 0.277064 Motif number 2 CTGACTCGGTCAGTCACCCCAAGACCTTGC 1 29 1 CAGTCACCCC 0.88252 -85 GATTCCGCCGCAGTCTTGCGCAAGGTCTTG 1 48 0 CAGTCTTGCG 0.58845 -66 TACCACGGCTCCTACCGGCGCCCCTGAAAC 2 33 1 CCTACCGGCG 0.511895 -42 CGGTTATCCACAGTCTGGTGTTTCAGGGGC 2 52 0 CAGTCTGGTG 0.659567 -23 CTGAAAGTTACCGTGTGCGGCGG 3 4 0 CCGTGTGCGG 0.7256 -23 CTCCTAACTGCCGTTCGCCGACC 4 4 0 CCGTTCGCCG 0.929617 -26 ATTGCCAGATCGGTCAGGCGGACTCCGGCC 5 20 0 CGGTCAGGCG 0.971124 -281 CGGGCGCTGCCGGTTTGGTGTTCCGTGCGA 5 53 1 CGGTTTGGTG 0.542402 -248 GTGTCCGGGTCAGATAGCCGTATAGATGGC 5 96 1 CAGATAGCCG 0.647478 -205 CCTATTTGCCCAGTTTCCTGCGCTGCACCC 5 205 0 CAGTTTCCTG 0.476687 -96 GCCAGCTCGACCGTCACGCGCTTGTAACGC 5 250 1 CCGTCACGCG 0.992248 -51 TGTAACGCCGCCGTTTCGCCTGGCCGTTAG 5 272 1 CCGTTTCGCC 0.951234 -29 TTTCGCCTGGCCGTTAGGCTGTCGGA 5 285 1 CCGTTAGGCT 0.675118 -16 TGTGCATCGTCTCCCGGCGGCGCGGC 6 7 1 TCGTCTCCCG 0.71176 -122 GGCGTCGCGGCCCTCACCGGCGACACCACA 6 89 1 CCCTCACCGG 0.42906 -40 ACAGCCCCGGCCGTCCCGCGCGAGCGCCGG 7 26 1 CCGTCCCGCG 0.98171 -75 CCGCAGCGTGCTGATTGCCCGCCTCTTCGT 7 66 0 CTGATTGCCC 0.449251 -35 CGCCTACACCCGCCGGAGAACC 8 3 1 CCTACACCCG 0.726519 -36 GTCCCGCTTGCTTTCTCGCCTCCCAAACCC 9 13 1 CTTTCTCGCC 0.63725 -86 AACCCGCCTCCTGCTTCCCGCTGCTCAGCG 9 38 1 CTGCTTCCCG 0.685262 -61 AACCAGCCTCCTGCTTCGCGCGCTGAGCAG 9 58 0 CTGCTTCGCG 0.737729 -41 GTTGTGATTTCAGTCACGCGCGA 10 4 0 CAGTCACGCG 0.97091 -236 TTGAGCGCGGCAGTCACCGTCCGGTCACGT 10 47 1 CAGTCACCGT 0.210273 -193 CACCAGAAGTCTTTTTGCCGTAACGTGACC 10 69 0 CTTTTTGCCG 0.602135 -171 CGTGACTTCACCGTCTGCCATTCCAGCCGG 10 174 0 CCGTCTGCCA 0.709366 -66 GGTTGGCTACCCGACAGGGCGCCGTTACAC 11 23 0 CCGACAGGGC 0.553681 -53 TGGCACGCCTCGGGCACGCCGGGGTTGGCT 11 45 0 CGGGCACGCC 0.711234 -31 GTGTTTGAGTCTGGCACGCCTCGGGCACGC 11 56 0 CTGGCACGCC 0.694242 -20 TACTTTCTGGCGATCCTTCTCT 12 3 1 CTTTCTGGCG 0.815214 -251 GTCGGTGCACCCGATTCCGGCGCAGCACGT 12 38 1 CCGATTCCGG 0.703023 -216 TGTCCCGTGCCGGTTTGGCGTGCCCAGTTT 12 129 0 CGGTTTGGCG 0.946339 -125 GTTGGCGGTGCGGTGTCCCGTGCCGGTTTG 12 142 0 CGGTGTCCCG 0.864079 -112 GGAATAGCACCGGTGAGCCGAGCGGTTAGA 12 228 1 CGGTGAGCCG 0.791283 -26 TCGCAACCCTCCGTTTCGGGA 13 2 0 CCGTTTCGGG 0.932268 -71 CGACCGGCTTCTTTCACGCGGCTTGCGCGT 15 33 1 CTTTCACGCG 0.83626 -123 CAACGGCGGCCCGTCACGCGCAAGCCGCGT 15 48 0 CCGTCACGCG 0.992248 -108 CATGCTGCCGCTGGTACGCGGCCGTTGCCA 15 92 0 CTGGTACGCG 0.775302 -64 ATTAGGTTCACCGTTTGCCGATGAGGCTCA 15 123 1 CCGTTTGCCG 0.974256 -33 CCGTCCCGCCCTCTGAGCCT 15 146 0 CCGTCCCGCC 0.93974 -10 ********** Masking position 1 Map Score: 42.8722 Number of sites scoring better than the average of aligned sites = 25146 Number in coding regions = 23086 Number in noncoding regions = 2060 Number of orfs with sites within 600 bp upstream = 1118 Fraction of orfs with sites within 600 bp upstream = 0.17957 Motif number 3 CCAAGACCTTGCGCAAGACTGCGGCGGAAT 1 47 1 GCGCAAGACT 0.86967 -67 CACGCCGGTGGGCGCGGCCCCCTACCACG 2 10 1 GGGCGCGGCC 0.919988 -65 GCCGCACGCGGCCGGAGTCCGCC 5 4 1 GCACGCGGCC 0.963527 -297 AGCGGCGCAAGCGCATGTCCAAGAAAAAGC 5 151 1 GCGCATGTCC 0.719305 -150 GGCGTTACAAGCGCGTGACGGTCGAGCTGG 5 251 0 GCGCGTGACG 0.995348 -50 CCCGGCGCTCGCGCGGGACGGCCGGGGCTG 7 27 0 GCGCGGGACG 0.994365 -74 CGGGCAATCAGCACGCTGCGGGTTATCGTG 7 75 1 GCACGCTGCG 0.773475 -26 CCGCTGCTCAGCGCGCGAAGCAGGAGGCTG 9 55 1 GCGCGCGAAG 0.946112 -44 TCGCGCGTGACTGAAATCACAA 10 3 1 GCGCGTGACT 0.982288 -237 ATCAAAGATTGAGCGCGGCAGTCACCGTCC 10 39 1 GAGCGCGGCA 0.791055 -201 GTGTGCCTCAGCACGTGACTTCACCGTCTG 10 187 0 GCACGTGACT 0.881054 -53 ACCCCGGCGTGCCCGAGGCGTGCCAGACTC 11 50 1 GCCCGAGGCG 0.919322 -26 CCCGATTCCGGCGCAGCACGTGCTCGGACT 12 47 1 GCGCAGCACG 0.748426 -207 GTTTTGCGCAGAGCACGGCGATGCGGGTAA 12 177 0 GAGCACGGCG 0.916806 -77 GCCGTGCTCTGCGCAAAACGCCGTAGGCCA 12 188 1 GCGCAAAACG 0.560734 -66 ATTCCGGTGAGCGCGTGGCCTACGGCGTTT 12 203 0 GCGCGTGGCC 0.991174 -51 GAATTCTTGGACGCGCGGCTGGTGTC 14 7 0 ACGCGCGGCT 0.855037 -54 CACGCGGCTTGCGCGTGACGGGCCGCCGTT 15 47 1 GCGCGTGACG 0.995348 -109 GAGGCTCAGAGGGCGGGACGG 15 145 1 GGGCGGGACG 0.962181 -11 ********** Masking position 4 Map Score: 34.4802 Number of sites scoring better than the average of aligned sites = 7851 Number in coding regions = 7244 Number in noncoding regions = 607 Number of orfs with sites within 600 bp upstream = 436 Fraction of orfs with sites within 600 bp upstream = 0.0700289 Motif number 4 TACCACGGCTCCTACCGGCGCCCCTGAAACAC 2 33 1 CCTAGGCGCC 0.800198 -42 CTGAAAGTTACCGTGTGCGGCGG 3 2 0 CCGTGCGGCG 0.91895 -25 CGGCGAACGGCAGTTAGGAGCCAGTT 4 14 1 CAGTGGAGCC 0.657802 -16 ATCGGTCAGGCGGACTCCGGCCGCGTGCGGC 5 10 0 CGGACCGGCC 0.987992 -291 CCGGCAGCGCCCGAGCATTGCCAGATCGGTCA 5 34 0 CCGAATTGCC 0.217794 -267 GCCAGCTCGACCGTCACGCGCTTGTAACGCCG 5 250 1 CCGTCGCGCT 0.592887 -51 TGGGGCGGCTCGCCGCGCCGCCGGGAGACGAT 6 16 0 CGCCGCCGCC 0.674554 -113 GCTATGCCTACGCATCGTGGCCCAATCGTTGG 6 51 0 CGCAGTGGCC 0.805418 -78 GGCGTCGCGGCCCTCACCGGCGACACCACAGA 6 89 1 CCCTCCGGCG 0.96666 -40 TCAACGATGACACAGCCCCGGCCGTCCCGCGC 7 15 1 CACACCCGGC 0.70128 -86 TCTTCGTTGGCGCTGTCCCGGCGCTCGCGCGG 7 41 0 CGCTCCCGGC 0.7257 -60 CGCCTACACCCGCCGGAGAACCTG 8 3 1 CCTACCCGCC 0.964142 -36 TTTCTCGCCTCCCAAACCCGCCTCCTGCTTCC 9 24 1 CCCACCCGCC 0.993302 -75 CTGCTTCGCGCGCTGAGCAGCGGGAAGCAGGA 9 46 0 CGCTGCAGCG 0.623641 -53 AGTTAATTTACCCAAACCAGCCTCCTGCTTCG 9 70 0 CCCACCAGCC 0.99055 -29 TTGAGCGCGGCAGTCACCGTCCGGTCACGTTA 10 47 1 CAGTCCGTCC 0.441825 -193 CCGGCCGCGTCCATAGCTGGCCAGATCCACCA 10 94 0 CCATCTGGCC 0.708779 -146 ACTTTGACAACAGATGCCGGCCGCGTCCATAG 10 110 0 CAGACCGGCC 0.977452 -130 TTCACCGTCTGCCATTCCAGCCGGAAGTCACT 10 166 0 GCCACCAGCC 0.897776 -74 CGTGCTGAGGCACACACCACCCGAGAGTGCCA 10 202 1 CACACCACCC 0.474718 -38 TGTCGGGTAGCCAACCCCGGCGTGCCCGAGGC 11 37 1 CCAACCGGCG 0.861366 -39 CCCGGCGTGCCCGAGGCGTGCCAGACTCAAAC 11 52 1 CCGACGTGCC 0.949105 -24 GTCGGTGCACCCGATTCCGGCGCAGCACGTGC 12 38 1 CCGACCGGCG 0.981669 -216 CGAGCCTTAACCGAGTGGAGCCGCGACCAGTT 13 36 0 CCGAGGAGCC 0.944564 -37 GGATCAAACCCTAACCGAGCCTTAACCGAGT 13 52 0 CCTACGAGCC 0.888469 -21 AGTGTCAGCCCGCACCCTTGCCGGATCCTTGA 14 38 0 CGCACTTGCC 0.670694 -23 CGCGGCTTGCGCGTGACGGGCCGCCGTTGATC 15 49 1 GCGTCGGGCC 0.826675 -107 TGGTACGCGGCCGTTGCCAGCCGATCTTGAGA 15 79 0 CCGTCCAGCC 0.985524 -77 **** ****** Masking position 11 Map Score: 35.6429 Number of sites scoring better than the average of aligned sites = 21915 Number in coding regions = 20307 Number in noncoding regions = 1608 Number of orfs with sites within 600 bp upstream = 957 Fraction of orfs with sites within 600 bp upstream = 0.15371 Motif number 5 TCTTGCGCAAGGTCTTGGGGTGACTGACCG 1 35 0 GGTCTTGGGG 0.970504 -79 TTGCCAGATCGGTCAGGCGGACTCCGGCCG 5 19 0 GGTCAGGCGG 0.964554 -282 GGGCGCTGCCGGTTTGGTGTTCCGTGCGAC 5 54 1 GGTTTGGTGT 0.915346 -247 TAGATGGCGGGGTCATGGGTTCAGTAATCA 5 118 1 GGTCATGGGT 0.883492 -183 CCCAATCGTTGGTTTTGGGGCGGCTCGCCG 6 33 0 GGTTTTGGGG 0.978819 -96 GCAGGAGGCGGGTTTGGGAGGCGAGAAAGC 9 22 0 GGTTTGGGAG 0.948158 -77 GCAGGAGGCTGGTTTGGGTAAATTAACTGT 9 74 1 GGTTTGGGTA 0.833034 -25 GTCCCGTGCCGGTTTGGCGTGCCCAGTTTT 12 128 0 GGTTTGGCGT 0.977252 -126 CGGGTAATGTGGGTTGGCGGTGCGGTGTCC 12 154 0 GGGTTGGCGG 0.946243 -100 GTTAAGGCTCGGTTAGGGTTTGATCC 13 57 1 GGTTAGGGTT 0.881415 -16 ********** Masking position 7 Map Score: 11.4423 Number of sites scoring better than the average of aligned sites = 1086 Number in coding regions = 929 Number in noncoding regions = 157 Number of orfs with sites within 600 bp upstream = 102 Fraction of orfs with sites within 600 bp upstream = 0.0163829 Motif number 6 GCCGGTAGGAGCCGTGGTAGGGGGCCGCGC 2 22 0 GCCGTGGTAG 0.941245 -53 CGTAGGCATAGCTGAGGTGGCGTCGCGGCC 6 71 1 GCTGAGGTGG 0.962266 -58 CTGTGGTGTCGCCGGTGAGGGCCGCGACGC 6 90 0 GCCGGTGAGG 0.936525 -39 CCGGGACAGCGCCAACGAAGAGGCGGGCAA 7 52 1 GCCAACGAAG 0.869265 -49 GGAGAACCTGGATAAGGTCGTGTG 8 25 1 GATAAGGTCG 0.590979 -14 GATCTGGCCAGCTATGGACGCGGCCGGCAT 10 99 1 GCTATGGACG 0.817506 -141 ACCCGAGAGTGCCAAGGAGGTTACAACCCC 10 220 1 GCCAAGGAGG 0.988091 -20 CCTCGGGCACGCCGGGGTTGGCTACCCGAC 11 38 0 GCCGGGGTTG 0.907468 -38 CGGGTGCACCGACAAGGAAGAGAAGGATCG 12 21 0 GACAAGGAAG 0.874133 -233 TTCACCGTTTGCCGATGAGGCTCAGAGGGC 15 129 1 GCCGATGAGG 0.963038 -27 ********** Masking position 7 Map Score: 5.32282 Number of sites scoring better than the average of aligned sites = 7260 Number in coding regions = 6822 Number in noncoding regions = 438 Number of orfs with sites within 600 bp upstream = 370 Fraction of orfs with sites within 600 bp upstream = 0.0594282 Motif number 7 CAGCGCCCGAGCATTGCCAGATCGGTCAGGC 5 31 0 GCTTGCCAGA 0.868119 -270 CACCAAACCGGCAGCGCCCGAGCATTGCCAG 5 42 0 GCGCGCCCGA 0.975615 -259 TAATCAAGAAGCGGCGCAAGCGCATGTCCAA 5 142 1 GCGCGCAAGC 0.987544 -159 CCAAGAAAAAGCATCGCAAGCTGCTGCGTCG 5 169 1 GCTCGCAAGC 0.986667 -132 GCAAGCTGCTGCGTCGCACCCGGGTGCAGCG 5 184 1 GCTCGCACCC 0.950433 -117 GCACCCGGGTGCAGCGCAGGAAACTGGGCAA 5 199 1 GCGCGCAGGA 0.966385 -102 TGGCGGGGTCTGCTCGCAACCTATTTGCCCA 5 223 0 TGTCGCAACC 0.675425 -78 GGGGCGGCTCGCCGCGCCGCCGGGAGACGAT 6 16 0 GCGCGCCGCC 0.980256 -113 GGTGAGGGCCGCGACGCCACCTCAGCTATGC 6 76 0 GCACGCCACC 0.898286 -53 ACCTTATCCAGGTTCTCCGGCGGGTGTAGGC 8 12 0 GGTCTCCGGC 0.857538 -27 CCAGCCTCCTGCTTCGCGCGCTGAGCAGCGG 9 55 0 GCTCGCGCGC 0.91661 -44 GCGTGCCCGAGGCGTGCCAGACTCAAACAC 11 56 1 GGGTGCCAGA 0.812646 -20 AGGAAGAGAAGGATCGCCAGAAAGTA 12 6 0 GGTCGCCAGA 0.975655 -248 CCGAGCACGTGCTGCGCCGGAATCGGGTGCA 12 43 0 GCGCGCCGGA 0.981297 -211 CGACCAGTTGGGTTCGCAACCCTCCGTTTCG 13 14 0 GGTCGCAACC 0.954207 -59 GGGCCGCCGTTGATCTCAAGATCGGCTGGCA 15 66 1 TGTCTCAAGA 0.179153 -90 ** ******** Masking position 7 Map Score: 25.0718 Number of sites scoring better than the average of aligned sites = 13781 Number in coding regions = 12880 Number in noncoding regions = 901 Number of orfs with sites within 600 bp upstream = 611 Fraction of orfs with sites within 600 bp upstream = 0.0981368 Motif number 8 GATATATGGAACTCGATGCGAAGGAATCAG 1 90 1 ACTCGATGCG 0.74811 -24 CACGCCGGTGGGCGCGGCCCCC 2 3 1 CGCCGGTGGG 0.73056 -72 GGTCGGCGAACGGCAGTTAGGAG 4 4 1 CGGCGAACGG 0.768609 -26 CCTAACGGCCAGGCGAAACGGCGGCGTTAC 5 273 0 AGGCGAAACG 0.773063 -28 CGCCGCCGGGAGACGATGCACA 6 3 0 AGACGATGCA 0.585002 -126 CGTCTCCCGGCGGCGCGGCGAGCCGCCCCA 6 18 1 CGGCGCGGCG 0.739112 -111 AACGATTGGGCCACGATGCGTAGGCATAGC 6 53 1 CCACGATGCG 0.929472 -76 CCGGTGAGGGCCGCGACGCCACCTCAGCTA 6 79 0 CCGCGACGCC 0.851015 -50 TCACACGATAACCCGCAGCGTGCTGATTGC 7 78 0 ACCCGCAGCG 0.803309 -23 GCTGCTCAGCGCGCGAAGCAGGAGGCTGGT 9 57 1 GCGCGAAGCA 0.714181 -42 CACCCGATTCCGGCGCAGCACGTGCTCGGA 12 45 1 CGGCGCAGCA 0.927518 -209 GGTGGAAATTCCGCGAAGGGCTCCGAGAAA 12 93 1 CCGCGAAGGG 0.961262 -161 TAATGTGGGTTGGCGGTGCGGTGTCCCGTG 12 150 0 TGGCGGTGCG 0.827066 -104 GCGCAGAGCACGGCGATGCGGGTAATGTGG 12 172 0 CGGCGATGCG 0.992879 -82 AAAACGCCGTAGGCCACGCGCTCACCGGAA 12 202 1 AGGCCACGCG 0.726591 -52 ********** Masking position 4 Map Score: 7.43949 Number of sites scoring better than the average of aligned sites = 21398 Number in coding regions = 19849 Number in noncoding regions = 1549 Number of orfs with sites within 600 bp upstream = 842 Fraction of orfs with sites within 600 bp upstream = 0.135239 Motif number 9 ********** No masking Map Score: -3.49344e-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 10 ********** No masking Map Score: -3.49344e-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 11 ********** No masking Map Score: -3.49344e-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