AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/alignace/lib/ORF_mtub.txt -z/skink1/amcguire/genomes/mtub.fna -intrC_mtub_opreg_300.orf -g0.656 -x5 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 = 0.656 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 Rv0072 300 hypothetical protein Rv0072 #2 Rv0986 300 hypothetical protein Rv0986 #3 glnA1 300 glnA1 #4 Rv2561 300 hypothetical protein Rv2561 #5 Rv2562 55 hypothetical protein Rv2562 #6 Rv2563 142 hypothetical protein Rv2563 #7 ftsE 43 ftsE #8 prfB 102 prfB Motif number 1 CACCCGGTGACCGGTGCGAAGT 1 2 1 ACCCGGTACC 0.896286 -299 TCGGTTGAGCCGCCGGTTGCCCACTGGTCGA 1 41 0 CGCCGGTGCC 0.972432 -260 CAAGGAAACGGTCCGACGGCCAAACGGAATG 1 134 1 GTCCGACGCC 0.931156 -167 CGCCACCCCACCTCGACCGCGGTGCCCACAC 1 170 1 CCTCGACGCG 0.968904 -131 ACTACCACCACCCCGAACGCCTCTTCGACCA 1 206 1 CCCCGAAGCC 0.969316 -95 TTCGACCACTAGCGGGCCGCGCCCTGACCAC 1 229 1 AGCGGGCGCG 0.780704 -72 GTGTTCCACTCGCGGACTGCCGGCCG 2 6 0 CGCGGACGCC 0.967901 -295 GCAGTCCGCGAGTGGAACACCTAGAAAAACT 2 17 1 AGTGGAAACC 0.389309 -284 GGCCACGACGCTGGGATCGCCGTTGCCATGG 2 66 1 CTGGGATGCC 0.705334 -235 CAGCACCGGATCCCGGCAGCGTCAGCTCCCC 2 95 0 TCCCGGCGCG 0.971222 -206 GTTGTTTGTTGACGGGATGCCCTTGACTTCG 2 125 1 GACGGGAGCC 0.874459 -176 ATGCCCTTGACTTCGCTGACCGTGGTGTGCG 2 141 1 CTTCGCTACC 0.412627 -160 GTTCCCGACCGGCCGGTTACGCGCACACCAC 2 162 0 GGCCGGTACG 0.894056 -139 CCGGTCGGGAACGCGGCGACGGATGGCGCGG 2 181 1 ACGCGGCACG 0.942658 -120 GCGACGGATGGCGCGGTGGCCAGGACAGTGA 2 196 1 GCGCGGTGCC 0.979201 -105 CAGAGCCGCCAGCCGGCGCCCCAT 3 4 1 AGCCGCCGCC 0.957776 -297 CGGTCCGGTGTCCGGCAAGCCCAGCGTCTTG 3 50 1 TCCGGCAGCC 0.822956 -251 TGCCGGGATAGTCGGGCGGCGATTTCGCCGT 3 79 1 GTCGGGCGCG 0.772088 -222 TATCGGGTCTGCCCGATGACGGCGAAATCGC 3 97 0 GCCCGATACG 0.878475 -204 CATCGGGCAGACCCGATAACCAGGTTCCCGT 3 110 1 ACCCGATACC 0.808645 -191 GATCGTAACCGGTGGCATGCCGAACGGGAAC 3 133 0 GGTGGCAGCC 0.827718 -168 CACAATAGGGCCGGGGAGACCCGGCGTCAGT 3 180 1 CCGGGGAACC 0.911076 -121 TTACTGACCGTGCCGCCCACCACTGACGCCG 3 201 0 TGCCGCCACC 0.693189 -100 GGCTCCATAGCGTCGGCCGCGGATACAGTAA 3 269 1 CGTCGGCGCG 0.516516 -32 GCGTTCCAGGCCCCGGATGCCAATTCGGGT 4 10 0 CCCCGGAGCC 0.984756 -291 GCATCCGGGGCCTGGAACGCGTTAGGGCAGT 4 21 1 CCTGGAAGCG 0.863251 -280 ACGTCAACCTGTGGGAAAGCCACTGCCCTAA 4 42 0 GTGGGAAGCC 0.690985 -259 ACGTACACATCGGCCGCAACCTTGGTTCGAT 4 93 0 CGGCCGCACC 0.607708 -208 CCGTCGACTGCATCGACCACGCGAGTGATCA 4 144 0 CATCGACACG 0.652004 -157 CACCCTTGGGTGGCGGCTGCCGGTTCCGTCG 4 169 0 TGGCGGCGCC 0.952113 -132 GTGGTTAGCAAATCGCCGACGAACACGACGC 4 205 1 AATCGCCACG 0.458402 -96 ATGGCGCATGACGCGGTGGCGTCGTGTTCGT 4 223 0 ACGCGGTGCG 0.941096 -78 AAGGCGGGGTCGGCGATGGCGCATGACGCGG 4 238 0 CGGCGATGCG 0.915255 -63 GCTGAGAGCCGCTCGCCGGCGTTAAGCTGCC 4 273 1 GCTCGCCGCG 0.850471 -28 GTTGCGAGCAGCGGGACAACCTGTCGATCAA 5 13 1 GCGGGACACC 0.937429 -43 TTCGCCCTCATGGGCGACGAATTTGATCG 5 37 0 CATGGGCACG 0.689682 -19 GGTTCGCTTGGCTCGATCGCCGATGATCTCG 6 14 1 GCTCGATGCC 0.924492 -129 TCGCCGATGATCTCGACCGCCACGACCGACC 6 30 1 TCTCGACGCC 0.899889 -113 CGGCGAACCAACGCGGCAACGCCAGCCCATG 6 81 1 ACGCGGCACG 0.942663 -62 GGTGAGATTAGCGGGCAGGCGAAA 7 4 0 GCGGGCAGCG 0.923325 -40 CACGGCACGCCAGTGTAGCGG 7 33 0 CACGGCAGCC 0.797547 -11 TCTGTGTTGTGCCCGGCTGCGGCGCAAGGGG 8 20 1 GCCCGGCGCG 0.991375 -83 GCTGCGGCGCAAGGGGCTGCGAATGGGCTGG 8 35 1 AAGGGGCGCG 0.8551 -68 CCGCACGACTGCGGCCCAGCCCATTCGCAGC 8 50 0 GCGGCCCGCC 0.724298 -53 ******* *** Masking position 10 Map Score: 66.1246 Number of sites scoring better than the average of aligned sites = 91449 Number in coding regions = 85668 Number in noncoding regions = 5781 Number of orfs with sites within 600 bp upstream = 1651 Fraction of orfs with sites within 600 bp upstream = 0.265178 Motif number 2 CCCGGTGACCGGTGCGAAGTCCACCATATC 1 13 1 GGTGCGAAGT 0.554333 -288 GATATCGGTTGAGCCGCCGGTTGCCCACTG 1 46 0 GAGCCGCCGG 0.976946 -255 CTTGTGGTTGGGTGTGCAGGTGAAGGTGAG 1 82 0 GGTGTGCAGG 0.848061 -219 ACAAGGAAACGGTCCGACGGCCAAACGGAA 1 133 1 GGTCCGACGG 0.974712 -168 CGGTCGAGGTGGGGTGGCGGGATCCATTCC 1 159 0 GGGGTGGCGG 0.985399 -142 CGTTGGTGTGGGCACCGCGGTCGAGGTGGG 1 176 0 GGCACCGCGG 0.555809 -125 AGAGGCGTTCGGGGTGGTGGTAGTCGTTGG 1 200 0 GGGGTGGTGG 0.965444 -101 GTCAGGGCGCGGCCCGCTAGTGGTCGAAGA 1 227 0 GGCCCGCTAG 0.874586 -74 GCACTTGTGGGGCCTGGTCTTGACGTTTTG 1 259 0 GGCCTGGTCT 0.58322 -42 TTCCACTCGCGGACTGCCGGCCG 2 4 0 GGACTGCCGG 0.8699 -297 CACGACGCTGGGATCGCCGTTGCCATGGGG 2 69 1 GGATCGCCGT 0.725487 -232 CCGCGTTCCCGACCGGCCGGTTACGCGCAC 2 167 0 GACCGGCCGG 0.692801 -134 GGTCGGGAACGCGGCGACGGATGGCGCGGT 2 183 1 GCGGCGACGG 0.922554 -118 GGCGACGGATGGCGCGGTGGCCAGGACAGT 2 195 1 GGCGCGGTGG 0.988154 -106 AGGCGTTGTTGGCGTGATGTCATCTCGATC 2 225 0 GGCGTGATGT 0.54087 -76 CAGAGCCGCCAGCCGGCGCCCC 3 3 1 GAGCCGCCAG 0.746579 -298 TGGCTCCGATGGGGCGCCGGCTGGCGGCTC 3 13 0 GGGGCGCCGG 0.996456 -288 CACCGGACCGGGTTCGCTGGCTCCGATGGG 3 30 0 GGTTCGCTGG 0.965916 -271 CAGCGAACCCGGTCCGGTGTCCGGCAAGCC 3 41 1 GGTCCGGTGT 0.905644 -260 CAAGACGCTGGGCTTGCCGGACACCGGACC 3 51 0 GGCTTGCCGG 0.96621 -250 CTGGTTATCGGGTCTGCCCGATGACGGCGA 3 103 0 GGTCTGCCCG 0.919537 -198 GCCCTATTGTGGGGCCATGGTCGGCAAGAT 3 161 0 GGGGCCATGG 0.802395 -140 CCCCACAATAGGGCCGGGGAGACCCGGCGT 3 177 1 GGGCCGGGGA 0.534349 -124 GGGCCGGGGAGACCCGGCGTCAGTGGTGGG 3 187 1 GACCCGGCGT 0.834894 -114 CGTCAGTGGTGGGCGGCACGGTCAGTAACG 3 204 1 GGGCGGCACG 0.62029 -97 CGGCTCCATAGCGTCGGCCGCGGATACAGT 3 268 1 GCGTCGGCCG 0.873988 -33 TCGAACCAAGGTTGCGGCCGATGTGTACGT 4 94 1 GTTGCGGCCG 0.507334 -207 GGCGGCTGCCGGTTCCGTCGACTGCATCGA 4 159 0 GGTTCCGTCG 0.491386 -142 GCCACCCAAGGGTGCGCAGGTGGTTAGCAA 4 186 1 GGTGCGCAGG 0.95916 -115 GATGGCGCATGACGCGGTGGCGTCGTGTTC 4 225 0 GACGCGGTGG 0.911853 -76 CACCAAGGCGGGGTCGGCGATGGCGCATGA 4 243 0 GGGTCGGCGA 0.910244 -58 CGCCGACCCCGCCTTGGTGGCTGAGAGCCG 4 254 1 GCCTTGGTGG 0.585945 -47 TGGTGGCTGAGAGCCGCTCGCCGGCGTTAA 4 268 1 GAGCCGCTCG 0.859641 -33 GGGTTCGCTTGGCTCGATCGCCGATGATCT 6 13 1 GGCTCGATCG 0.829685 -130 CGAGGTGAGGGGGTCGGTCGTGGCGGTCGA 6 42 0 GGGTCGGTCG 0.956137 -101 GGTTCGCCGAGGTTCGACCGAGGTGAGGGG 6 60 0 GGTTCGACCG 0.869936 -83 TTGCCGCGTTGGTTCGCCGAGGTTCGACCG 6 70 0 GGTTCGCCGA 0.821449 -73 AAATGATCATGGGCTGGCGTTGCCGCGTTG 6 89 0 GGGCTGGCGT 0.931772 -54 TCATTTGATTGGGTCCACGGAAGCAGGTAG 6 113 1 GGGTCCACGG 0.839128 -30 CCGCTACACTGGCGTGCCGTG 7 33 1 GGCGTGCCGT 0.910432 -11 GTGCCCGGCTGCGGCGCAAGGGGCTGCGAA 8 28 1 GCGGCGCAAG 0.352375 -75 CGAATGGGCTGGGCCGCAGTCGTGCGGTGC 8 54 1 GGGCCGCAGT 0.92169 -49 ********** Masking position 1 Map Score: 58.8338 Number of sites scoring better than the average of aligned sites = 55874 Number in coding regions = 52186 Number in noncoding regions = 3688 Number of orfs with sites within 600 bp upstream = 1405 Fraction of orfs with sites within 600 bp upstream = 0.225667 Motif number 3 TGGTGGACTTCGCACCGGTCACCGGGTG 1 8 0 CGACCGGTCA 0.538088 -293 CCGCCGGTTGCCCACTGGTCGATATGGTGGA 1 32 0 CCACTGGTCG 0.775654 -269 TATCGGTTGAGCCGCCGGTTGCCCACTGGTC 1 43 0 GCGCCGGTTG 0.947925 -258 TTCCCGACTAGCTTGTGGTTGGGTGTGCAGG 1 92 0 GCTGTGGTTG 0.714266 -209 CAAGCTAGTCGGGAAAGGCTGGCAGACAAGG 1 108 1 GGAAAGGCTG 0.486629 -193 TCGGGGTGGTGGTAGTCGTTGGTGTGGGCAC 1 191 0 GGAGTCGTTG 0.780468 -110 GGCGCGGCCCGCTAGTGGTCGAAGAGGCGTT 1 221 0 GCAGTGGTCG 0.881083 -80 CCCCACAAGTGCGCCACGTTGGTAGCCTCTG 1 277 1 GCCCACGTTG 0.707187 -24 TCCCAGAGGCTACCAACGTGGC 1 289 0 CCAGAGGCTA 0.724486 -12 CCACTCGCGGACTGCCGGCCG 2 1 0 ACGCCGGCCG 0.495719 -300 GTGTCAATGGCCACGACGCTGGGATCGCCGT 2 58 1 CCCGACGCTG 0.724123 -243 GAAGTCAAGGGCATCCCGTCAACAAACAACA 2 124 0 GCTCCCGTCA 0.375387 -177 CGCCGCGTTCCCGACCGGCCGGTTACGCGCA 2 168 0 CCACCGGCCG 0.93067 -133 CGACGGATGGCGCGGTGGCCAGGACAGTGAT 2 197 1 CGGGTGGCCA 0.533718 -104 GCTCCGATGGGGCGCCGGCTGGCGGCTCTG 3 10 0 GGGCCGGCTG 0.952378 -291 GACTATCCCGGCAAGACGCTGGGCTTGCCGG 3 61 0 GCAGACGCTG 0.922273 -240 CGTTCGGCATGCCACCGGTTACGATCTTGCC 3 138 1 GCACCGGTTA 0.823472 -163 CCCCGTGTTGCGCAGACGTTACTGACCGTGC 3 219 0 CGAGACGTTA 0.351954 -82 CTGTATCCGCGGCCGACGCTATGGAGCCGAT 3 266 0 GGCGACGCTA 0.439586 -35 TCCGGGGCCTGGAACGCGTTAGGGCAGTGGC 4 24 1 GGACGCGTTA 0.314495 -277 CAGTGGCTTTCCCACAGGTTGACGTAAATGA 4 48 1 CCACAGGTTG 0.830174 -253 ATCGAACCAAGGTTGCGGCCGATGTGTACGT 4 93 1 GGTGCGGCCG 0.821278 -208 CGCACCCTTGGGTGGCGGCTGCCGGTTCCGT 4 171 0 GGGGCGGCTG 0.957684 -130 CCAAGGGTGCGCAGGTGGTTAGCAAATCGCC 4 191 1 GCGGTGGTTA 0.715824 -110 CAGGTGGTTAGCAAATCGCCGACGAACACGA 4 202 1 GCAATCGCCG 0.408702 -99 CCGACCCCGCCTTGGTGGCTGAGAGCCGCTC 4 256 1 CTGGTGGCTG 0.393854 -45 GTGGCTGAGAGCCGCTCGCCGGCGTTAAGCT 4 270 1 GCGCTCGCCG 0.883168 -31 ACGAATTTGATCGACAGGTTGTCCCGCTGCT 5 19 0 TCACAGGTTG 0.259671 -37 GGGGGTCGGTCGTGGCGGTCGAGATCATCGG 6 33 0 CGGGCGGTCG 0.837221 -110 AATGATCATGGGCTGGCGTTGCCGCGTTGGT 6 87 0 GGTGGCGTTG 0.344351 -56 TTTCGCCTGCCCGCTAATCTCACCGC 7 6 1 CCGCCCGCTA 0.739869 -38 CCTCTGTGTTGTGCCCGGCTGCGGCGCAAGG 8 18 1 GTCCCGGCTG 0.488513 -85 CGGCTGCGGCGCAAGGGGCTGCGAATGGGCT 8 33 1 GCAGGGGCTG 0.905865 -70 GTCATCTGATGCTAGACGCTG 8 92 1 GCAGACGCTG 0.922273 -11 ** ******** Masking position 8 Map Score: 33.8911 Number of sites scoring better than the average of aligned sites = 65327 Number in coding regions = 61268 Number in noncoding regions = 4059 Number of orfs with sites within 600 bp upstream = 1435 Fraction of orfs with sites within 600 bp upstream = 0.230485 Motif number 4 AGGTGAGTTTGTCGATATCGGTTGAGCCGC 1 59 0 GTCGATATCG 0.913962 -242 CCACAAGCTAGTCGGGAAAGGCTGGCAGAC 1 105 1 GTCGGGAAAG 0.87471 -196 GAGGTGGGGTGGCGGGATCCATTCCGTTTG 1 154 0 GGCGGGATCC 0.984402 -147 TGGCCACGACGCTGGGATCGCCGTTGCCAT 2 65 1 GCTGGGATCG 0.943965 -236 AGCTGACGCTGCCGGGATCCGGTGCTGTTG 2 99 1 GCCGGGATCC 0.981453 -202 TAACCGGCCGGTCGGGAACGCGGCGACGGA 2 174 1 GTCGGGAACG 0.98591 -127 CGGTAGTCTAGCCCGGATCGCTCACAGCTG 2 256 0 GCCCGGATCG 0.973835 -45 CCAGCGTCTTGCCGGGATAGTCGGGCGGCG 3 70 1 GCCGGGATAG 0.969511 -231 GCCCGATGACGGCGAAATCGCCGCCCGACT 3 88 0 GGCGAAATCG 0.888842 -213 GGCCATGGTCGGCAAGATCGTAACCGGTGG 3 149 0 GGCAAGATCG 0.960269 -152 GGGCGGCACGGTCAGTAACGTCTGCGCAAC 3 214 1 GTCAGTAACG 0.69865 -87 TTGACTGACGGGCAATATCGGCTCCATAGC 3 250 1 GGCAATATCG 0.800892 -51 GGCATCCGGGGCCTGGAACGCGTTAGGGCA 4 20 1 GCCTGGAACG 0.939408 -281 CAGCCACCAAGGCGGGGTCGGCGATGGCGC 4 247 0 GGCGGGGTCG 0.979677 -54 GGGTTCGCTTGGCTCGATCGCCGATGATCT 6 13 1 GGCTCGATCG 0.860479 -130 GGTCGTGGCGGTCGAGATCATCGGCGATCG 6 27 0 GTCGAGATCA 0.795309 -116 ********** Masking position 1 Map Score: 24.9457 Number of sites scoring better than the average of aligned sites = 7741 Number in coding regions = 7343 Number in noncoding regions = 398 Number of orfs with sites within 600 bp upstream = 339 Fraction of orfs with sites within 600 bp upstream = 0.0544491 Motif number 5 CACCCGGTGACCGGTGCGAAGTC 1 4 1 CCGGTGACCG 0.933953 -297 GGTGGGGTGGCGGGATCCATTCCGTTTGGC 1 152 0 CGGGATCCAT 0.760247 -149 CGGCCGGCAGTCCGCGAGTGGAAC 2 5 1 CGGCAGTCCG 0.384823 -296 GCTGGGATCGCCGTTGCCATGGGGAGCTGA 2 75 1 CCGTTGCCAT 0.531204 -226 AACAACAGCACCGGATCCCGGCAGCGTCAG 2 101 0 CCGGATCCCG 0.554266 -200 CATCCGTCGCCGCGTTCCCGACCGGCCGGT 2 176 0 CGCGTTCCCG 0.74848 -125 GTAGTCTAGCCCGGATCGCTCACAGCTGAA 2 254 0 CCGGATCGCT 0.78857 -47 GAGCCGCCAGCCGGCGCCCCATCGGAGCCA 3 13 1 CCGGCGCCCC 0.848301 -288 CGGCGCCCCATCGGAGCCAGCGAACCCGGT 3 24 1 TCGGAGCCAG 0.804893 -277 CGAACCCGGTCCGGTGTCCGGCAAGCCCAG 3 44 1 CCGGTGTCCG 0.966595 -257 GACGGCGAAATCGCCGCCCGACTATCCCGG 3 81 0 TCGCCGCCCG 0.721323 -220 ACCCGATAACCAGGTTCCCGTTCGGCATGC 3 120 1 CAGGTTCCCG 0.898768 -181 AAGATCGTAACCGGTGGCATGCCGAACGGG 3 136 0 CCGGTGGCAT 0.806935 -165 CCGGGGAGACCCGGCGTCAGTGGTGGGCGG 3 190 1 CCGGCGTCAG 0.944309 -111 ACGGGCAATATCGGCTCCATAGCGTCGGCC 3 257 1 TCGGCTCCAT 0.717947 -44 ACTGCCCTAACGCGTTCCAGGCCCCGGATG 4 22 0 CGCGTTCCAG 0.639079 -279 GTGGCGGCTGCCGGTTCCGTCGACTGCATC 4 161 0 CCGGTTCCGT 0.875732 -140 GCCACCGCGTCATGCGCCATCGCCGACCCC 4 234 1 CATGCGCCAT 0.219971 -67 CAGCTTAACGCCGGCGAGCGGCTCTCAGCC 4 272 0 CCGGCGAGCG 0.748812 -29 TCGGGTTCGCTTGGCTCGATC 6 2 1 CGGGTTCGCT 0.694722 -141 ACGGAAGCTACCTGCTTCCGTGGACCCAAT 6 120 0 CCTGCTTCCG 0.683415 -23 TGTGTTGTGCCCGGCTGCGGCGCAAGGGGC 8 22 1 CCGGCTGCGG 0.512632 -81 ********** Masking position 1 Map Score: 19.4463 Number of sites scoring better than the average of aligned sites = 31902 Number in coding regions = 29792 Number in noncoding regions = 2110 Number of orfs with sites within 600 bp upstream = 1010 Fraction of orfs with sites within 600 bp upstream = 0.162223 Motif number 6 GGTGTGGGCACCGCGGTCGAGGTGGGGTGG 1 172 0 CCGCGGTCGA 0.923368 -129 AACGGCGATCCCAGCGTCGTGGCCATTGAC 2 60 0 CCAGCGTCGT 0.416366 -241 GCCACCGCGCCATCCGTCGCCGCGTTCCCG 2 186 0 CATCCGTCGC 0.876641 -115 CCGGGCTAGACTACCGCCGAAATATCCAAC 2 270 1 CTACCGCCGA 0.898343 -31 GTAGGTCCTTTGTTGGATATTTCGGCG 2 284 0 CTTTGTTGGA 0.503674 -17 ACCGGGTTCGCTGGCTCCGATGGGGCGCCG 3 24 0 CTGGCTCCGA 0.685903 -277 TTTACTGTATCCGCGGCCGACGCTATGGAG 3 271 0 CCGCGGCCGA 0.918375 -30 GGTTCGATACCTATCTTGGAGGTCATTTAC 4 71 0 CTATCTTGGA 0.192775 -230 CGGCCGCAACCTTGGTTCGATACCTATCTT 4 84 0 CTTGGTTCGA 0.891647 -217 ACTACGTACACATCGGCCGCAACCTTGGTT 4 97 0 CATCGGCCGC 0.888123 -204 GCGGCTGCCGGTTCCGTCGACTGCATCGAC 4 158 0 GTTCCGTCGA 0.885628 -143 CCTGCGCACCCTTGGGTGGCGGCTGCCGGT 4 176 0 CTTGGGTGGC 0.937703 -125 GTGGCGTCGTGTTCGTCGGCGATTTGCTAA 4 209 0 GTTCGTCGGC 0.506324 -92 GCGTCATGCGCCATCGCCGACCCCGCCTTG 4 240 1 CCATCGCCGA 0.668776 -61 GCCGACCCCGCCTTGGTGGCTGAGAGCCGC 4 255 1 CCTTGGTGGC 0.810571 -46 TCGGGTTCGCTTGGCTCGATCGCCGATGA 6 10 1 CTTGGCTCGA 0.716882 -133 GACCCCCTCACCTCGGTCGAACCTCGGCGA 6 57 1 CCTCGGTCGA 0.97256 -86 GCGTTGCCGCGTTGGTTCGCCGAGGTTCGA 6 73 0 GTTGGTTCGC 0.697782 -70 AAGCTACCTGCTTCCGTGGACCCAATCAAA 6 116 0 CTTCCGTGGA 0.927812 -27 AAGCAGGTAGCTTCCGTCGC 6 133 1 CTTCCGTCGC 0.97616 -10 TTCGCAGCCCCTTGCGCCGCAGCCGGGCAC 8 28 0 CTTGCGCCGC 0.968481 -75 CTGCGAATGGGCTGGGCCGCAGTCGTGCGG 8 51 1 GCTGGGCCGC 0.880134 -52 ********** Masking position 9 Map Score: 23.5425 Number of sites scoring better than the average of aligned sites = 18288 Number in coding regions = 17147 Number in noncoding regions = 1141 Number of orfs with sites within 600 bp upstream = 723 Fraction of orfs with sites within 600 bp upstream = 0.116126 Motif number 7 ATGGATCCCGCCACCCCACCTCGACCGCGG 1 162 1 CCACCCCACC 0.749844 -139 CGCGCCCTGACCACAAAACGTCAAGACCAG 1 246 1 CCACAAAACG 0.651366 -55 CCGGTTACGCGCACACCACGGTCAGCGAAG 2 151 0 GCACACCACG 0.971686 -150 CAGAGCCGCCAGCCGGCGCCCCATC 3 6 1 CCGCCAGCCG 0.937547 -295 CCGACTATCCCGGCAAGACGCTGGGCTTGC 3 64 0 CGGCAAGACG 0.796525 -237 GGCGAAATCGCCGCCCGACTATCCCGGCAA 3 78 0 CCGCCCGACT 0.955453 -223 TGACCGTGCCGCCCACCACTGACGCCGGGT 3 198 0 GCCCACCACT 0.682722 -103 AGTAACGTCTGCGCAACACGGGGTTGACTG 3 227 1 GCGCAACACG 0.974393 -74 TACTGTATCCGCGGCCGACGCTATGGAGCC 3 269 0 GCGGCCGACG 0.924755 -32 CGTGGTCGATGCAGTCGACGGAACCGGCAG 4 154 1 GCAGTCGACG 0.678686 -147 GAACCGGCAGCCGCCACCCAAGGGTGCGCA 4 174 1 CCGCCACCCA 0.573435 -127 AATCGCCGACGAACACGACGCCACCGCGTC 4 215 1 GAACACGACG 0.706922 -86 GTCGGCGATGGCGCATGACGCGGTGGCGTC 4 231 0 GCGCATGACG 0.944566 -70 TGGCTGAGAGCCGCTCGCCGGCGTTAAGCT 4 271 1 CCGCTCGCCG 0.923118 -30 GCTAATCTCACCGCTACACTGGCGTGCCGT 7 23 1 CCGCTACACT 0.742533 -21 CCGCAGCCGGGCACAACACAGAGGCTCGAG 8 12 0 GCACAACACA 0.679166 -91 GTCATGTGCACCGCACGACTGCGGCCCAGC 8 61 0 CCGCACGACT 0.963119 -42 GTCGTGCGGTGCACATGACGGTCATCTGAT 8 72 1 GCACATGACG 0.882257 -31 ********** Masking position 9 Map Score: 17.5252 Number of sites scoring better than the average of aligned sites = 11628 Number in coding regions = 10725 Number in noncoding regions = 903 Number of orfs with sites within 600 bp upstream = 649 Fraction of orfs with sites within 600 bp upstream = 0.10424 Motif number 8 ACGACGCTGGGATCGCCGTTGCCATGGGGA 2 70 1 GATCGCCGTT 0.851596 -231 ATGCCCTTGACTTCGCTGACCGTGGTGTGC 2 141 1 CTTCGCTGAC 0.841608 -160 ATGTCATCTCGATCACTGTCCTGGCCACCG 2 209 0 GATCACTGTC 0.891483 -92 GTCTAGCCCGGATCGCTCACAGCTGAAGGC 2 251 0 GATCGCTCAC 0.940873 -50 ACCGGACCGGGTTCGCTGGCTCCGATGGGG 3 29 0 GTTCGCTGGC 0.991148 -272 GCAACACGGGGTTGACTGACGGGCAATATC 3 239 1 GTTGACTGAC 0.813135 -62 TAGTTCGAGAGTTCGCTGATCTGATCACTC 4 123 1 GTTCGCTGAT 0.921416 -178 TCGCTGATCTGATCACTCGCGTGGTCGATG 4 135 1 GATCACTCGC 0.886967 -166 GTGGCGTCGTGTTCGTCGGCGATTTGCTAA 4 209 0 GTTCGTCGGC 0.922064 -92 GCTGAGAGCCGCTCGCCGGCGTTAAGCTGC 4 273 1 GCTCGCCGGC 0.964253 -28 TCGGGTTCGCTTGGCTCGATCGCC 6 5 1 GTTCGCTTGG 0.507565 -138 CGCTTGGCTCGATCGCCGATGATCTCGACC 6 18 1 GATCGCCGAT 0.902014 -125 GCGTTGCCGCGTTGGTTCGCCGAGGTTCGA 6 73 0 GTTGGTTCGC 0.537253 -70 TCTAGCATCAGATGACCGTCATGTGCACCG 8 78 0 GATGACCGTC 0.680261 -25 ********** Masking position 3 Map Score: 10.9729 Number of sites scoring better than the average of aligned sites = 13329 Number in coding regions = 12539 Number in noncoding regions = 790 Number of orfs with sites within 600 bp upstream = 555 Fraction of orfs with sites within 600 bp upstream = 0.0891423 Motif number 9 TTGTGGTTGGGTGTGCAGGTGAAGGTGAGTT 1 80 0 GTGGCAGGTG 0.956448 -221 AGTCGTTGGTGTGGGCACCGCGGTCGAGGTG 1 178 0 GTGGCACCGC 0.512784 -123 GGTCGAAGAGGCGTTCGGGGTGGTGGTAGTC 1 205 0 GCGTCGGGGT 0.694481 -96 TTGACGTTTTGTGGTCAGGGCGCGGCCCGCT 1 239 0 GTGTCAGGGC 0.950894 -62 TGACGCTGCCGGGATCCGGTGCTGTTGTTTG 2 102 1 GGGTCCGGTG 0.856791 -199 CGCCAACAACGCCTTCAGCTGTGAGCGATCC 2 241 1 GCCTCAGCTG 0.943281 -60 TCAGCTGTGAGCGATCCGGGCTAGACTACCG 2 255 1 GCGTCCGGGC 0.848319 -46 CAGAGCCGCCAGCCGGCGCCCCATCGGA 3 8 1 GCCGCCGGCG 0.805002 -293 CGGCGATTTCGCCGTCATCGGGCAGACCCGA 3 95 1 GCCTCATCGG 0.910005 -206 GCTCCATAGCGTCGGCCGCGGATACAGTAAA 3 270 1 GTCGCCGCGG 0.904468 -31 ACCCGAATTGGCATCCGGGGCCTGGAACGC 4 10 1 GGCTCCGGGG 0.847801 -291 GACCACGCGAGTGATCAGATCAGCGAACTCT 4 130 0 GTGTCAGATC 0.333494 -171 CCACCCAAGGGTGCGCAGGTGGTTAGCAAAT 4 187 1 GTGGCAGGTG 0.956442 -114 CGGTGGCGTCGTGTTCGTCGGCGATTTGCTA 4 210 0 GTGTCGTCGG 0.815615 -91 CTTAACGCCGGCGAGCGGCTCTCAGCCACCA 4 268 0 GCGGCGGCTC 0.804887 -33 CCGCTCGCCGGCGTTAAGCTGCCCAACATC 4 281 1 GCGTAAGCTG 0.636489 -20 GAGTTGCGAGCAGCGGGACAACCTGT 5 6 1 GCGGCAGCGG 0.988147 -50 TTCGCCCTCATGGGCGACGAATTT 5 42 0 GCCTCATGGG 0.917762 -14 CGTGGCGGTCGAGATCATCGGCGATCGAGCC 6 23 0 GAGTCATCGG 0.782099 -120 AGGTTCGACCGAGGTGAGGGGGTCGGTCGTG 6 50 0 GAGTGAGGGG 0.502617 -93 ACCCAATCAAATGATCATGGGCTGGCGTTGC 6 96 0 ATGTCATGGG 0.509805 -47 GGTGAGATTAGCGGGCAGGCGAAA 7 4 0 GCGGCAGGCG 0.953966 -40 GGTGCACATGACGGTCATCTGATGCTAGACG 8 79 1 ACGTCATCTG 0.424468 -24 *** ******* Masking position 1 Map Score: 22.9706 Number of sites scoring better than the average of aligned sites = 24070 Number in coding regions = 22274 Number in noncoding regions = 1796 Number of orfs with sites within 600 bp upstream = 989 Fraction of orfs with sites within 600 bp upstream = 0.15885 Motif number 10 AGCCGCCGGTTGCCCACTGGTCGATATGGT 1 35 0 TGCCCACTGG 0.801255 -266 TGTGGTTGGGTGTGCAGGTGAAGGTGAGTT 1 80 0 TGTGCAGGTG 0.930585 -221 TGGTCGAAGAGGCGTTCGGGGTGGTGGTAG 1 207 0 GGCGTTCGGG 0.761608 -94 CTACCAACGTGGCGCACTTGTGGGGCCTGG 1 272 0 GGCGCACTTG 0.982659 -29 GCCGGGATCCGGTGCTGTTGTTTGTTGACG 2 109 1 GGTGCTGTTG 0.862232 -192 GGCGACGGATGGCGCGGTGGCCAGGACAGT 2 195 1 GGCGCGGTGG 0.960004 -106 AACCCCGTGTTGCGCAGACGTTACTGACCG 3 222 0 TGCGCAGACG 0.854434 -79 CACCCAAGGGTGCGCAGGTGGTTAGCAAAT 4 188 1 TGCGCAGGTG 0.979386 -113 GCCCGGCTGCGGCGCAAGGGGCTGCGAATG 8 30 1 GGCGCAAGGG 0.956849 -73 GCAGTCGTGCGGTGCACATGACGGTCATCT 8 69 1 GGTGCACATG 0.895502 -34 ********** Masking position 2 Map Score: 5.91269 Number of sites scoring better than the average of aligned sites = 8372 Number in coding regions = 7826 Number in noncoding regions = 546 Number of orfs with sites within 600 bp upstream = 436 Fraction of orfs with sites within 600 bp upstream = 0.0700289 Motif number 11 ********** No masking Map Score: -3.10975e-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: -3.10975e-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: -3.10975e-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