AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00920_mtub_reg_300.orf -o00920_mtub_300.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 Input sequences: #1 purT 300 purT #2 lpqS 148 lpqS #3 cysM3 202 cysM3 #4 lipU 300 lipU #5 cysM2 56 cysM2 #6 pra 201 pra #7 metB 31 metB #8 Rv1284 206 hypothetical protein Rv1284 #9 cysD 93 cysD #10 Rv1335 21 hypothetical protein Rv1335 #11 cysK 300 cysK #12 metC 282 metC #13 ponA' 300 ponA' #14 Rv3683 68 hypothetical protein Rv3683 #15 Rv3684 62 hypothetical protein Rv3684 Motif number 1 ********** No masking Map Score: 3.17856e-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 2 GCGCTGCGTGGCTGGGTCGTCACG 1 5 1 TGCGTGGCTG 0.734416 -296 GACGAACCCTGCGCGGACCGGACAGCTTCG 1 57 0 GCGCGGACCG 0.74654 -244 TGCGCCCAGTCGCCTGGCTCGCGGCAGCGA 1 85 0 CGCCTGGCTC 0.980112 -216 CATACCTATTCGGGTGGCGGCAACCATGTC 1 113 1 CGGGTGGCGG 0.937926 -188 CAGCTCACCCTCTCGCTCGGTCGTTGCT 1 283 0 CCTCTCGCTC 0.947604 -18 GTCTGGATTTGGTCTCGCTCTTCGTACCCT 2 23 1 GGTCTCGCTC 0.911757 -126 TGGCCACCACCGCCTGGCGCTGACCCC 3 8 0 CGCCTGGCGC 0.966121 -195 TCGCCGGTGACCGCTGACCCCCATCCAGTG 3 45 1 CCGCTGACCC 0.919488 -158 GGAAGTCACACGCGGCACTGGATGGGGGTC 3 60 0 CGCGGCACTG 0.902266 -143 TGAACAACAACCTGCCGCTGGCAAATCCGG 3 118 1 CCTGCCGCTG 0.893443 -85 CTGGCCAACCGGGCGCACCGCACCTTG 3 186 1 GGGCGCACCG 0.63662 -17 AGCGGCTGAGCCTCTGGCTCAGCCAACCCC 4 61 0 CCTCTGGCTC 0.949507 -240 GTAAGGTATCCGGCTCACCCAGAGTTGTCA 4 150 1 CGGCTCACCC 0.948179 -151 GCCTTCAACACGTCGCGCGGCGAAATGACA 4 175 0 CGTCGCGCGG 0.747749 -126 CGACCTCCACCGGGGCGCCGTCGCTGATCG 4 231 0 CGGGGCGCCG 0.510549 -70 CGGGATGCCGACGGAGCGCG 5 1 1 CGGGATGCCG 0.480832 -56 CGACGGAGCGCGTGTGCCTGGCCGGCAGGC 5 19 1 CGTGTGCCTG 0.590044 -38 TGTGCCTGGCCGGCAGGCGCCTGAGACGAT 5 31 1 CGGCAGGCGC 0.5685 -26 AATTGCGGCGCGCCTGCCTGCGCGA 6 6 0 CGCCTGCCTG 0.827841 -196 CAAACAATTACGGCAGGCGGCCAGTGCCGC 6 47 1 CGGCAGGCGG 0.518403 -155 CCACGACCTGTGCGGCACTGGCCGCCTGCC 6 58 0 TGCGGCACTG 0.489807 -144 CCCATTGGGCCCCGTGGCTCATCTCACCGC 6 95 1 CCCGTGGCTC 0.927166 -107 TTCACCGGAACGCCCGGCGGTGAGATGAGC 6 111 0 CGCCCGGCGG 0.823925 -91 GGCACGCCATCGCCGGGCTCGCTACCCTGT 8 35 0 CGCCGGGCTC 0.988672 -172 AGCCCGGCGATGGCGTGCCGCCAGCGCGCC 8 46 1 TGGCGTGCCG 0.625561 -161 CCCCATCAACCGGCGCGCTGGCGGCACGCC 8 57 0 CGGCGCGCTG 0.64325 -150 ATCCGGATCACGGGTGACCCCATCAACCGG 8 74 0 CGGGTGACCC 0.900349 -133 GGATGGTTCCGCTCGGGCCGATTCTGATGC 8 100 1 GCTCGGGCCG 0.811688 -107 TAGGCTGACGGCTCGGGCTG 9 1 0 GCTCGGGCTG 0.931778 -93 CGTCAGCCTAGGGCGCACTGGCGCACCGGC 9 21 1 GGGCGCACTG 0.930252 -73 AGCCCCATCTCGGCGGGCTGCCGGTGCGCC 9 40 0 CGGCGGGCTG 0.733203 -54 TCCCGCTGGCCCATGGCCTATA 11 3 1 CCGCTGGCCC 0.869256 -298 TGCGCTTTATCCTCCCGCGCCGCCTCGCCG 11 60 1 CCTCCCGCGC 0.833247 -241 CCTCCCGCGCCGCCTCGCCGTGGGCTGTTG 11 70 1 CGCCTCGCCG 0.976858 -231 CCACAGCAATCCTCGCGCTCTTGCCCGCAA 11 120 1 CCTCGCGCTC 0.970567 -181 AAATCGGTGTTCGCCCGCGGCGTACAGCCG 11 158 1 TCGCCCGCGG 0.601385 -143 CGTACAGCCGCCGCGCACTCACGAGTCGTT 11 178 1 CCGCGCACTC 0.953393 -123 CTAGCAGCCCGCGCGGGCCCCTAGCGGCCG 12 30 1 GCGCGGGCCC 0.507002 -253 AGCACAACTCCGGCGGTCTCAACTGGCCCT 12 64 0 CGGCGGTCTC 0.801122 -219 GGGGCTTGACGCTGGCGCTCATGACCGACT 12 133 0 GCTGGCGCTC 0.833382 -150 CGTCAAGCCCCGGCTTGCTGGCCGGCAACC 12 152 1 CGGCTTGCTG 0.926182 -131 GGTCATCACCCGGGGCACCCCACCGCGGTT 12 186 0 CGGGGCACCC 0.915658 -97 TGAGTAGCCATCGCCGGCTGCGCGGCAAGC 12 220 1 TCGCCGGCTG 0.864548 -63 TGGCGGACCCGCGCTTGCCGCGCAGCCGGC 12 232 0 GCGCTTGCCG 0.646782 -51 GGGCCCGTCATGGCGGACCCGCGCTTGCCG 12 242 0 TGGCGGACCC 0.795808 -41 TCCGCCATGACGGGCCCCTGACCAGACGGG 12 255 1 CGGGCCCCTG 0.759702 -28 TGCATGGTGTGGCGTCGCTCGC 13 3 0 GGCGTCGCTC 0.874919 -298 CCAGACAAGACGGCACGCTCGTCCCAAAAA 13 111 0 CGGCACGCTC 0.920725 -190 GGCGGCATTTCCCCCGGCCGATCCAGACAA 13 133 0 CCCCCGGCCG 0.819772 -168 TGCGGGATCGGGGCGGGCGCGATATTTGCG 13 202 0 GGGCGGGCGC 0.50768 -99 TAGAATCTTTCCGCGGGCGGGTGAGTCACT 13 231 0 CCGCGGGCGG 0.50371 -70 GTCACTCCACCGTGCCGCTCGGTCCAATAG 13 258 0 CGTGCCGCTC 0.924236 -43 GTAGCGACCTCCTGTCACTCCACCGTGCCG 13 271 0 CCTGTCACTC 0.610502 -30 CAATCGGCCTCGTGCCGCTGCAGACGCGCG 14 18 1 CGTGCCGCTG 0.935741 -51 CCGCGATACAGGCCCCGCCGC 15 2 0 GGCCCCGCCG 0.675573 -61 ********** Masking position 8 Map Score: 90.203 Number of sites scoring better than the average of aligned sites = 66907 Number in coding regions = 62250 Number in noncoding regions = 4657 Number of orfs with sites within 600 bp upstream = 1464 Fraction of orfs with sites within 600 bp upstream = 0.235143 Motif number 3 GATTCTCCTTTGCCGAAGCTGTCCGGTCCGC 1 44 1 TGCCGAGCTG 0.492417 -257 GTCCGGTCCGCGCAGGGTTCGTCGCTGCCGC 1 64 1 CGCAGGTTCG 0.711485 -237 TCGCCTGGCTCGCGGCAGCGACGAACCCTGC 1 75 0 CGCGGAGCGA 0.745437 -226 CTGCCGCGAGCCAGGCGACTGGGCGCATACC 1 88 1 CCAGGGACTG 0.556554 -213 GCATACCTATTCGGGTGGCGGCAACCATGTC 1 112 1 TCGGGGGCGG 0.651577 -189 CATCCGGCTCCGACATGGTTGCCGCCACCCG 1 123 0 CGACAGGTTG 0.832364 -178 ACTTTTGCTATGAGGAGGTGGGGGCAACTGA 1 202 0 TGAGGGGTGG 0.920404 -99 AACGACCGAGCGAGAGGGTGAGCTG 1 286 1 CGAGAGGTGA 0.627686 -15 TTGCGTACTGCCCGATGTCTGGGCAGGGTAC 2 46 0 CCCGAGTCTG 0.558632 -103 TCGGGCAGTACGCAACGGTTGATGATCACCA 2 62 1 CGCAAGGTTG 0.859357 -87 GGGGTCAGCGCCAGGCGGTGGTGGCCATTCG 3 11 1 CCAGGGGTGG 0.958483 -192 GGAAGTCACACGCGGCACTGGATGGGGGTCA 3 59 0 CGCGGACTGG 0.772027 -144 AGGTGCGGTGCGCCCGGTTGGCCAGGAGTAT 3 180 0 CGCCCGTTGG 0.922231 -23 AAGCTAAGTTCGCGGGGTTGGCTGAGCCAGA 4 48 1 CGCGGGTTGG 0.984019 -253 CAGCATGTGACGAAGCGGCTGAGCCTCTGGC 4 73 0 CGAAGGGCTG 0.88938 -228 TTTCGCCGCGCGACGTGTTGAAGGCACGTAG 4 180 1 CGACGGTTGA 0.440444 -121 TCAGCGACGGCGCCCCGGTGGAGGTCGTCGA 4 234 1 CGCCCGGTGG 0.874313 -67 CAGGCACACGCGCTCCGTCGGCATCCCG 5 8 0 CGCTCGTCGG 0.79972 -49 TCGCGCAGGCAGGCGCGCCGCA 6 2 1 CGCGCGGCAG 0.943343 -200 CGGCCAGTGCCGCACAGGTCGTGGGCACTGA 6 64 1 CGCACGGTCG 0.845623 -138 CACCGGAACGCCCGGCGGTGAGATGAGCCAC 6 108 0 CCCGGGGTGA 0.893673 -94 CGGACGGTCGGGTGGGCAGTGCAGT 7 17 0 CGGTCGGTGG 0.626672 -15 CCCAATGCGACGCGGTGGTTGGGC 8 4 0 CGCGGGGTTG 0.99308 -203 GGGTAGCGAGCCCGGCGATGGCGTGCCGCCA 8 38 1 CCCGGGATGG 0.931062 -169 CATCAACCGGCGCGCTGGCGGCACGCCATCG 8 53 0 CGCGCGGCGG 0.987895 -154 CGGATGGTTCCGCTCGGGCCGATTCTGATGC 8 99 1 CGCTCGGCCG 0.814881 -108 CTCAGATCGACGCCGCGGTGAATTTTAACAA 8 149 0 CGCCGGGTGA 0.957669 -58 GGCGCACTGGCGCACCGGCAGCCCGCCGAGA 9 32 1 CGCACGGCAG 0.771116 -62 ACCGGCAGCCCGCCGAGATGGGGCTGCGTTG 9 45 1 CGCCGGATGG 0.973193 -49 CAACAGCCCACGGCGAGGCGGCGCGGGAGGA 11 69 0 CGGCGGGCGG 0.972161 -232 CGGGCAAGAGCGCGAGGATTGCTGTGGACGC 11 116 0 CGCGAGATTG 0.789598 -185 CTCTTGCCCGCAAACGGGTGGAAATCGGTGT 11 137 1 CAAACGGTGG 0.281086 -164 GGCGGCTGTACGCCGCGGGCGAACACCGATT 11 159 0 CGCCGGGGCG 0.796247 -142 CTCGTGAGTGCGCGGCGGCTGTACGCCGCGG 11 172 0 CGCGGGGCTG 0.993962 -129 GCTAGGGGCCCGCGCGGGCTGCTAGTAATCT 12 24 0 CGCGCGGCTG 0.989049 -259 CAGTTGAGACCGCCGGAGTTGTGCTTTGAGT 12 69 1 CGCCGAGTTG 0.883592 -214 CGGGGCACCCCACCGCGGTTGGAGGGTTGCC 12 175 0 CACCGGGTTG 0.793647 -108 CCCCGGGTGATGACCAGGTTGAGTAGCCATC 12 201 1 TGACCGGTTG 0.609345 -82 CCGCGCTTGCCGCGCAGCCGGCGATGGCTAC 12 223 0 CGCGCGCCGG 0.956824 -60 AGCGCGGGTCCGCCATGACGGGCCCCTGACC 12 247 1 CGCCAGACGG 0.897857 -36 GACGGGCCCCTGACCAGACGGGGAAAGCTC 12 263 1 TGACCGACGG 0.409186 -20 TCTGTATAAGTCAGGTGGTCGTGTGCCAATT 13 59 1 TCAGGGGTCG 0.367502 -242 TAAACGGGACCGAAGCGGCGGCATTTCCCCC 13 148 0 CGAAGGGCGG 0.959283 -153 TCGGGGCGGGCGCGATATTTGCGGCTGCGTC 13 194 0 CGCGAATTTG 0.251144 -107 ATAGAATCTTTCCGCGGGCGGGTGAGTCACT 13 231 0 TCCGCGGCGG 0.894268 -70 TTGGACCGAGCGGCACGGTGGAGTGACAGGA 13 261 1 CGGCAGGTGG 0.882498 -40 CGCAGCCTATCCCGGAGCTGGACGGACAACG 15 34 1 CCCGGGCTGG 0.917186 -29 ***** ***** Masking position 7 Map Score: 61.4977 Number of sites scoring better than the average of aligned sites = 50660 Number in coding regions = 47523 Number in noncoding regions = 3137 Number of orfs with sites within 600 bp upstream = 1294 Fraction of orfs with sites within 600 bp upstream = 0.207838 Motif number 4 GAAAGACACGGATTCTCCTTTGCCGAAGCTGTCCGGTC 1 34 1 GTCCTGCCAG 0.500594 -267 CGAAGCTGTCCGGTCCGCGCAGGGTTCGTCGCTGCCGC 1 57 1 CGCGCGGGCG 0.708431 -244 GCGCCCAGTCGCCTGGCTCGCGGCAGCGACGAACCCTG 1 76 0 GCGCGGGCCG 0.845243 -225 TGACCGCTTAGCCATCCATCCGGCTCCGACATGGTTGC 1 132 0 GCTCCGGCCG 0.935898 -169 GGGTTATCAGGTCACTCAGTTGCCCCCACCTCCTCATA 1 187 1 GCCCTGCCCA 0.714556 -114 TTCGCAACTCCGCTCACATCTGCCTGTGTACTTTTGCT 1 224 0 CCCCCGCCTG 0.876226 -77 CGATCGCTCCTCGTCTGGATTTGGTCTCGCTCT 2 6 1 GTCCCGGATG 0.251334 -143 TCGCTCTTCGTACCCTGCCCAGACATCGGGCAGTACGC 2 37 1 TCCGCGACCG 0.580013 -112 GCCAGGCGGTGGTGGCCATTCGCCATCGCCGGTGACCG 3 20 1 GTGCTGCCCG 0.847015 -183 GGCACTGGATGGGGGTCAGCGGTCACCGGCGATGGCGA 3 39 0 GGGCCGTCCG 0.576907 -164 CCAGTGCCGCGTGTGACTTCCGGCCCCGATGCAGAAGC 3 69 1 GGGCCGGCCG 0.992595 -134 CAAGGTGCGGTGCGCCCGGTTGGCCAGGAGTATCTGCG 3 175 0 TCCCTGGCGG 0.598852 -28 TCAGACTCTTTGGCTGTGGCACCTAAAAA 4 2 1 CGCCTGCTGG 0.378172 -299 GGCTGAGCCTCTGGCTCAGCCAACCCCGCGAACTTAGC 4 50 0 CGCCCAACCG 0.716364 -251 ATCAGCGACGGCGCCCCGGTGGAGGTCGTCGAGTCTGG 4 233 1 GGCCTGAGCG 0.69923 -68 TCCAAGTCTTGTTGCGCGATTAGCTGCGCTGGCGTCAC 4 271 1 GTCCTAGCCG 0.624067 -30 GCCAGGCACACGCGCTCCGTCGGCATCCCG 5 3 0 CCCCTGGCCC 0.75558 -54 CGGAGCGCGTGTGCCTGGCCGGCAGGCGCCTGAGACGA 5 22 1 GGCGCGCACG 0.779263 -35 GAACTAAATTGCGGCGCGCCTGCCTGCGCGA 6 4 0 GGCCCGCCCG 0.993181 -198 AAACAATTACGGCAGGCGGCCAGTGCCGCACAGGTCGT 6 48 1 GCGCCAGTCG 0.42065 -154 GTCGTGGGCACTGACCCATTGGGCCCCGTGGCTCATCT 6 81 1 CGCCTGGCCG 0.983516 -121 ACCGGATTCACCGGAACGCCCGGCGGTGAGATGAGCCA 6 109 0 CGACCGGCTG 0.348819 -93 GGGCACACCTTCCACTGAGGTTCAGCTGA 6 183 0 GCCCTCACAG 0.344767 -19 TCCGGGACTGCACTGCCCACCCGACCGTCCG 7 4 1 GGCGCGCCCC 0.717855 -28 CCCAACCACCGCGTCGCATTGGGACAGGGTAGCGAGCC 8 12 1 GGCCTGGAGG 0.694251 -195 CGAGCCCGGCGATGGCGTGCCGCCAGCGCGCCGGTTGA 8 44 1 GTGGCGCCCG 0.769981 -163 GCGGGCCTCCTCGGGTATCGCGGTGTGGAC 8 187 0 GGCCCGGTCG 0.96249 -20 CAGCCCGAGCCGTCAGCCTAGGGCGCACTGGC 9 5 1 CGGCCGCCGG 0.859145 -89 CGCACTGGCGCACCGGCAGCCCGCCGAGATGGGGCTGC 9 34 1 CCGCCCGCAG 0.318576 -60 CCGCCGAGATGGGGCTGCGTTGACAGCGATAGGGAAGC 9 54 1 GGCGTGACCG 0.930398 -40 CTGTTGCATGGGCCCACTATAGGCCATGGGCCAGCGGG 11 12 0 GCCCTGGCTG 0.938455 -289 TTTATCCTCCCGCGCCGCCTCGCCGTGGGCTGTTGTTG 11 65 1 CCCGTGCCGG 0.738381 -236 CACAGCAATCCTCGCGCTCTTGCCCGCAAACGGGTGGA 11 121 1 CCCCTGCCCA 0.519364 -180 CGTGAGTGCGCGGCGGCTGTACGCCGCGGGCGAACACC 11 163 0 CGGCTCGCCG 0.458542 -138 AAGTCGATGGCTGCATCCGTGGGCACGGTCATGGCTGT 11 219 0 CGACTGGCGG 0.359168 -82 GGCCCAGTTGGCCTCCCAGCTGACGTCGAAGTCGATGG 11 247 0 GCCCCGACCG 0.990007 -54 ACGCCCAACAGTGTCGGTCCAGGCCCAGTTGGCCTCCC 11 268 0 GGCGCGGCAG 0.891334 -33 CGGCCGCTAGGGGCCCGCGCGGGCTGCTAGTAATCTGA 12 22 0 GGCGCGGCCT 0.650124 -261 CTGAGTAGCTGCCATGCGCTAGGCTTCGAGTCGGTCAT 12 105 1 GCTCTGGCCG 0.872888 -178 TTGGAGGGTTGCCGGCCAGCAAGCCGGGGCTTGACGCT 12 150 0 GCGCCAGCGG 0.679397 -133 TGGTCATCACCCGGGGCACCCCACCGCGGTTGGAGGGT 12 179 0 CGGCCCACCG 0.652684 -104 ACCCGCGCTTGCCGCGCAGCCGGCGATGGCTACTCAAC 12 218 0 GCCCCGGCTG 0.967534 -65 GCCATGACGGGCCCCTGACCAGACGGGGAAAGCTC 12 258 1 GCCGCGACGG 0.888695 -25 GCGAGCGACGCCACACCATGCACATCGGTGTTACCTG 13 10 1 GCCCTCACCG 0.875147 -291 CGGGGGAAATGCCGCCGCTTCGGTCCCGTTTACGGGGT 13 147 1 GCCGTGGTCG 0.81516 -154 TTGCGGCTGCGTCACTGGTCAGACCCCGTAAACGGGAC 13 169 0 GCCGCGACCG 0.971689 -132 CGCAAATATCGCGCCCGCCCCGATCCCGCAGTGACTCA 13 202 1 GGCGCGATCG 0.713281 -99 CGATCCCGCAGTGACTCACCCGCCCGCGGAAAGATTCT 13 222 1 GGCCCGCCCG 0.993786 -79 GCCCTCCCAATCGGCCTCGTGCCGCTGCA 14 2 1 CCCCTGGCCG 0.983392 -67 ATCAGACCTCGACCGGCAGTAGGCTGCGTGC 14 48 1 GCGCTGGCCG 0.879791 -21 CCAGCTCCGGGATAGGCTGCGGACCGCGATACAGGCCC 15 17 0 GTGCCGACCG 0.77898 -46 CCCGGAGCTGGACGGACAACGCGATCCGG 15 44 1 GCGCCCGACG 0.580209 -19 * * * * * *** ** Masking position 18 Map Score: 79.3334 Number of sites scoring better than the average of aligned sites = 55577 Number in coding regions = 52453 Number in noncoding regions = 3124 Number of orfs with sites within 600 bp upstream = 1256 Fraction of orfs with sites within 600 bp upstream = 0.201735 Motif number 5 GAATAGGTATGCGCCCAGTCGCCTGGCTCGCGGCAGC 1 87 0 GGCCCGCGGC 0.940287 -214 CAACCATGTCGGAGCCGGATGGATGGCTAAGCGGTCA 1 133 1 GAGCCGTGGC 0.979491 -168 ATGAGGAGGTGGGGGCAACTGAGTGACCTGATAACCC 1 187 0 GGGGCATGGC 0.975683 -114 GCAAAAGTACACAGGCAGATGTGAGCGGAGTTGCGAA 1 225 1 AAGGCGTGGG 0.884118 -76 ACCGTTGCGTACTGCCCGATGTCTGGGCAGGGTACGA 2 44 0 ATGCCGTGGG 0.802217 -105 GGTAGGGTGTAAGGGCGGATGATGGCGTGGTGATCAT 2 83 0 AGGGCGTGGG 0.973034 -66 CGCTTTCCACGTGGCCCACTATATACCCTATAGGGGT 2 117 0 GGGCCATAAC 0.353795 -32 GGGGTCAGCGCCAGGCGGTGGTGGCCATTCGCC 3 7 1 ACGCCGCGGG 0.912753 -196 CTTCTGCATCGGGGCCGGAAGTCACACGCGGCACTGG 3 69 0 GGGCCGAGCC 0.944047 -134 AAGGTGCGGTGCGCCCGGTTGGCCAGGAGTATCTGCG 3 175 0 GGCCCGTGAG 0.739806 -28 ATCAGCGACGGCGCCCCGGTGGAGGTCGTCGAGTCTG 4 233 1 GGCCCGTGGC 0.952736 -68 CGGGATGCCGACGGAGCGCGTGTGCCTGGC 5 4 1 GTGCCAGGGG 0.501357 -53 CGTGTGCCTGGCCGGCAGGCGCCTGAGACGATGAACG 5 29 1 GCGGCGCGGG 0.968507 -28 TCGCGCAGGCAGGCGCGCCGCAATTTAGTTC 6 5 1 GAGGCGCGCC 0.904524 -197 AATTACGGCAGGCGGCCAGTGCCGCACAGGTCGTGGG 6 52 1 GCGGCATGCC 0.735911 -150 GATGAGCCACGGGGCCCAATGGGTCAGTGCCCACGAC 6 81 0 GGGCCATGCG 0.9616 -121 GACAGGGTAGCGAGCCCGGCGATGGCGTGCCGCCAGC 8 34 1 CAGCCGCGGG 0.795217 -173 GTGCCGCCAGCGCGCCGGTTGATGGGGTCACCCGTGA 8 60 1 CCGCCGTGGG 0.86474 -147 CCCCATCTCGGCGGGCTGCCGGTGCGCCAGTGCGCCC 9 31 0 GGGGCGCGCC 0.973147 -63 GCGCAGCTGTATGGCCTGTTGCATGGGCCCACTATAG 11 28 0 AGGCCGTGGG 0.983794 -273 CCGCCTCGCCGTGGGCTGTTGTTGTTGTTGATTCCTG 11 79 1 GGGGCGTGTG 0.871169 -222 CCACCCGTTTGCGGGCAAGAGCGCGAGGATTGCTGTG 11 121 0 GGGGCAAGGG 0.892309 -180 GTGTTCGCCCGCGGCGTACAGCCGCCGCGCACTCACG 11 164 1 GGGCGAAGCG 0.193774 -137 CGTCAGCTGGGAGGCCAACTGGGCCTGGACCGACACT 11 260 1 GGGCCATGCG 0.961112 -41 AGGGGCCCGCGCGGGCTGCTAGTAATCTGATGTGGAC 12 15 0 GGGGCGTAAC 0.521234 -268 AGCAGCCCGCGCGGGCCCCTAGCGGCCGGTAAAGGGC 12 32 1 GGGGCCTAGC 0.346096 -251 CGGCCGGTAAAGGGCCAGTTGAGACCGCCGGAGTTGT 12 54 1 AGGCCGTGCG 0.966879 -229 TGACCGACTCGAAGCCTAGCGCATGGCAGCTACTCAG 12 105 0 GAGCCACGGC 0.909463 -178 CCAGCAAGCCGGGGCTTGACGCTGGCGCTCATGACCG 12 136 0 GGGCTGCGGG 0.836343 -147 TTGAGTAGCCATCGCCGGCTGCGCGGCAAGCGCGGGT 12 219 1 ACGCCGTGGC 0.917912 -64 CGTCTGGTCAGGGGCCCGTCATGGCGGACCCGCGCTT 12 246 0 GGGCCGCACG 0.892527 -37 GAATCTTTCCGCGGGCGGGTGAGTCACTGCGGGATCG 13 222 0 GGGGCGTGCC 0.984729 -79 GCAGCGGCACGAGGCCGATTGGGAGGGC 14 2 0 GGGCCATGGG 0.988956 -67 GCACGCAGCCTACTGCCGGTCGAGGTCTGAT 14 48 0 GAGCCATGGC 0.934435 -21 CAGCTCCGGGATAGGCTGCGGACCGCGATACAGGCCC 15 17 0 AAGGCGGGGG 0.561264 -46 * **** * ** * * Masking position 6 Map Score: 60.834 Number of sites scoring better than the average of aligned sites = 17609 Number in coding regions = 16449 Number in noncoding regions = 1160 Number of orfs with sites within 600 bp upstream = 770 Fraction of orfs with sites within 600 bp upstream = 0.123675 Motif number 6 TTCGTGACGACCCAGCCACGCAGCGC 1 7 0 CCCAGCCACG 0.710016 -294 CCGAAGCTGTCCGGTCCGCGCAGGGTTCGT 1 56 1 CCGGTCCGCG 0.963572 -245 CGTCGCTGCCGCGAGCCAGGCGACTGGGCG 1 83 1 GCGAGCCAGG 0.601085 -218 CTATTCGGGTGGCGGCAACCATGTCGGAGC 1 118 1 GGCGGCAACC 0.549072 -183 GGATGGCTAAGCGGTCATCAAGTTCGGATG 1 153 1 GCGGTCATCA 0.830704 -148 AATAATTGAGCCGAGCAACGACCGAGCGAG 1 270 1 CCGAGCAACG 0.778259 -31 TGATCACCACGCCATCATCCGCCCTTACAC 2 84 1 GCCATCATCC 0.736926 -65 GTGCCCGCTTTCCACGTGGCCCACTA 2 133 0 GCTTTCCACG 0.433598 -16 GGGGTCAGCGCCAGGCGGTG 3 1 1 GGGGTCAGCG 0.84412 -202 ATGGGGGTCAGCGGTCACCGGCGATGGCGA 3 39 0 GCGGTCACCG 0.810641 -164 GCTGGCAAATCCGGTAAACCCAACAAGCAT 3 134 1 CCGGTAAACC 0.163247 -69 CAAGGTGCGGTGCGCCCGGTTGGCCA 3 187 0 GCGGTGCGCC 0.840413 -16 GAGTCTACGTGCCTTCAACACGTCGCGCGG 4 185 0 GCCTTCAACA 0.409932 -116 TCGCAAACTTGCGTGCCTCGAGTCTACGTG 4 204 0 GCGTGCCTCG 0.90527 -97 ACGCAAGTTTGCGATCAGCGACGGCGCCCC 4 220 1 GCGATCAGCG 0.942762 -81 CACGCGCTCCGTCGGCATCCCG 5 3 0 GTCGGCATCC 0.252144 -54 CGTGTGCCTGGCCGGCAGGCGCCTGAGACG 5 29 1 GCCGGCAGGC 0.534663 -28 GCGTTCATCGTCTCAGGCGC 5 47 0 GCGTTCATCG 0.820085 -10 GCGCAGGCAGGCGCGCCGCAATTTAGTTCG 6 13 1 GCGCGCCGCA 0.761083 -189 TCCGGTGAATCCGGTCCTCAGGTACTGTAG 6 132 1 CCGGTCCTCA 0.691719 -70 GCACGCCATCGCCGGGCTCGCTACCCTGTC 8 34 0 GCCGGGCTCG 0.565011 -173 CCCGGCGATGGCGTGCCGCCAGCGCGCCGG 8 48 1 GCGTGCCGCC 0.940706 -159 CACGGGTGACCCCATCAACCGGCGCGCTGG 8 66 0 CCCATCAACC 0.538337 -141 GCGGGCCTCCTCGGGTATCG 8 197 0 GCGGGCCTCC 0.974796 -10 CAGCCCGAGCCGTCAGCCTAGGGCGCAC 9 9 1 GCCGTCAGCC 0.963151 -85 CCCCATCTCGGCGGGCTGCCGGTGCGCCAG 9 38 0 GCGGGCTGCC 0.842764 -56 CTTCCCTATCGCTGTCAACGCAGCCCCATC 9 61 0 GCTGTCAACG 0.703746 -33 CTTTATCCTCCCGCGCCGCCTCGCCGTGGG 11 64 1 CCGCGCCGCC 0.805537 -237 GGCGTCCACAGCAATCCTCGCGCTCTTGCC 11 115 1 GCAATCCTCG 0.22597 -186 CCACCCGTTTGCGGGCAAGAGCGCGAGGAT 11 128 0 GCGGGCAAGA 0.467817 -173 TTCGCCCGCGGCGTACAGCCGCCGCGCACT 11 167 1 GCGTACAGCC 0.467331 -134 CGGCTTGCTGGCCGGCAACCCTCCAACCGC 12 162 1 GCCGGCAACC 0.931155 -121 GCGGACCCGCGCTTGCCGCGCAGCCGGCGA 12 230 0 GCTTGCCGCG 0.672094 -53 GCGGCAAGCGCGGGTCCGCCATGACGGGCC 12 241 1 CGGGTCCGCC 0.706711 -42 GCGAGCGACGCCACACCATG 13 1 1 GCGAGCGACG 0.528523 -300 CAGTGACTCACCCGCCCGCGGAAAGATTCT 13 230 1 CCCGCCCGCG 0.55835 -71 CTGCAGACGCGCGATCAGACCTCGACCGGC 14 35 1 GCGATCAGAC 0.278921 -34 GGCCTGTATCGCGGTCCGCAGCCTATCCCG 15 18 1 GCGGTCCGCA 0.952872 -45 ********** Masking position 6 Map Score: 29.9283 Number of sites scoring better than the average of aligned sites = 46590 Number in coding regions = 43630 Number in noncoding regions = 2960 Number of orfs with sites within 600 bp upstream = 1281 Fraction of orfs with sites within 600 bp upstream = 0.20575 Motif number 7 TCGCCTGGCTCGCGGCAGCGACGAACCCTG 1 76 0 CGCGGCAGCG 0.507967 -225 TGTCTATTTTCGCAACTCCGCTCACATCTG 1 240 0 CGCAACTCCG 0.880641 -61 GGAAGTCACACGCGGCACTGGATGGGGGTC 3 60 0 CGCGGCACTG 0.790883 -143 TAGTGATCGTCGCTTCTGCATCGGGGCCGG 3 88 0 CGCTTCTGCA 0.898133 -115 CGTTGTAGTCCGATACAGCATGTGACGAAG 4 89 0 CGATACAGCA 0.550282 -212 TCCGGGACTGCACTGCCCACCC 7 3 1 CGGGACTGCA 0.741055 -29 TCGCCGGGCTCGCTACCCTGTCCCAATGCG 8 26 0 CGCTACCCTG 0.643651 -181 CCAGTTTTCACGCATCAGAATCGGCCCGAG 8 111 0 CGCATCAGAA 0.537949 -96 TCGCTGTCAACGCAGCCCCATCTCGGCGGG 9 53 0 CGCAGCCCCA 0.912355 -41 GAGGATAAAGCGCAGCTGTATGGCCTGTTG 11 44 0 CGCAGCTGTA 0.920554 -257 GCGAGCGACGCCACACCATGCACATCGG 13 9 1 CGCCACACCA 0.821819 -292 GTGCCAATTGCGCAACAGTACGATAACGCT 13 81 1 CGCAACAGTA 0.912432 -220 TGACCAGTGACGCAGCCGCAAATATCGCGC 13 186 1 CGCAGCCGCA 0.793723 -115 GACAGGAGGTCGCTACTGTAGTACGC 13 285 1 CGCTACTGTA 0.876801 -16 GGTCTGATCGCGCGTCTGCAGCGGCACGAG 14 26 0 CGCGTCTGCA 0.932753 -43 ********** Masking position 6 Map Score: 10.2889 Number of sites scoring better than the average of aligned sites = 9744 Number in coding regions = 9106 Number in noncoding regions = 638 Number of orfs with sites within 600 bp upstream = 449 Fraction of orfs with sites within 600 bp upstream = 0.0721169 Motif number 8 GTGCCCGCTTTCCACGTGGCCCACT 2 134 0 CGCTTTCCAC 0.917378 -15 CAACAAGCATCACCTCCAACCCGCAGATAC 3 154 1 CACCTCCAAC 0.919557 -49 TCATGCCCAACACTTCCTACGCCGTTGTAG 4 111 0 CACTTCCTAC 0.902491 -190 CCCAATGGGTCAGTGCCCACGACCTGTGCG 6 74 0 CAGTGCCCAC 0.98376 -128 GGGCACACCTTCCACTGAGGTTCAG 6 187 0 CACCTTCCAC 0.905522 -15 TCCGGGACTGCACTGCCCACCCGACCGTCC 7 11 1 CACTGCCCAC 0.991564 -21 GCTTCCCTATCGCTGTCAACGCAGCCCCAT 9 62 0 CGCTGTCAAC 0.895037 -32 ACAGCCATGACCGTGCCCACGGATGCAGCC 11 219 1 CCGTGCCCAC 0.949081 -82 GGCAGCTACTCAGTGCCAACTCAAAGCACA 12 88 0 CAGTGCCAAC 0.959479 -195 ********** Masking position 9 Map Score: 8.94044 Number of sites scoring better than the average of aligned sites = 1030 Number in coding regions = 955 Number in noncoding regions = 75 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706 Motif number 9 GCGAACTTAGCTTGACAGTCTTTTTTAGGT 4 31 0 CTTGACAGTC 0.835934 -270 AGCGCGTGTGCCTGGCCGGCAGGCGCCTGA 5 25 1 CCTGGCCGGC 0.908204 -32 GCACTGCCCACCCGACCGTCCG 7 20 1 CCCGACCGTC 0.878769 -12 GCAGCCCCATCTCGGCGGGCTGCCGGTGCG 9 42 0 CTCGGCGGGC 0.880845 -52 GATCAACAGCCATGACCGTGCCCACGGATG 11 214 1 CATGACCGTG 0.595673 -87 CCAACTGGGCCTGGACCGACACTGTTGGGC 11 274 1 CTGGACCGAC 0.983391 -27 TCAACTGGCCCTTTACCGGCCGCTAGGGGC 12 46 0 CTTTACCGGC 0.822331 -237 CGCTGGCGCTCATGACCGACTCGAAGCCTA 12 124 0 CATGACCGAC 0.92939 -159 GCGGGTCCGCCATGACGGGCCCCTGACCAG 12 250 1 CATGACGGGC 0.90987 -33 CTTTCCCCGTCTGGTCAGGGGCCCGTCATG 12 260 0 CTGGTCAGGG 0.514684 -23 GCCGTCTTGTCTGGATCGGCCGGGGGAAAT 13 127 1 CTGGATCGGC 0.881051 -174 ACCCCGTAAACGGGACCGAAGCGGCGGCAT 13 155 0 CGGGACCGAA 0.448746 -146 GGCTGCGTCACTGGTCAGACCCCGTAAACG 13 173 0 CTGGTCAGAC 0.72767 -128 GCGATCAGACCTCGACCGGCAGTAGGCTGC 14 45 1 CTCGACCGGC 0.984932 -24 TATCCCGGAGCTGGACGGACAACGCGATCC 15 41 1 CTGGACGGAC 0.953642 -22 ********** Masking position 8 Map Score: 10.346 Number of sites scoring better than the average of aligned sites = 7229 Number in coding regions = 6805 Number in noncoding regions = 424 Number of orfs with sites within 600 bp upstream = 380 Fraction of orfs with sites within 600 bp upstream = 0.0610344 Motif number 10 CGCTTTCCACGTGGCCCACTATATACCCTAT 2 123 0 GTGCCCACTA 0.889107 -26 GACGAAGCGGCTGAGCCTCTGGCTCAGCCAA 4 65 0 CTGGCCTCTG 0.926639 -236 CCCACGACCTGTGCGGCACTGGCCGCCTGCC 6 58 0 GTGGGCACTG 0.963004 -144 GTCGTGGGCACTGACCCATTGGGCCCCGTGG 6 81 1 CTGCCCATTG 0.874003 -121 GCTCGCTACCCTGTCCCAATGCGACGCGGTG 8 18 0 CTGCCCAATG 0.946022 -189 CGGGCTGCCGGTGCGCCAGTGCGCCCTAGGC 9 26 0 GTGGCCAGTG 0.968025 -68 ATGGCCTATAGTGGGCCCATGCAACAGGCCA 11 23 1 GTGGCCCATG 0.91499 -278 GGTGTTACCTGTATCTCACTGATCTGTATAA 13 37 1 GTACTCACTG 0.671078 -264 TCAGGTGGTCGTGTGCCAATTGCGCAACAGT 13 69 1 GTGGCCAATT 0.818483 -232 ATATTTGCGGCTGCGTCACTGGTCAGACCCC 13 180 0 CTGGTCACTG 0.962758 -121 CCGCGGGCGGGTGAGTCACTGCGGGATCGGG 13 220 0 GTGGTCACTG 0.977984 -81 *** ******* Masking position 2 Map Score: 7.76855 Number of sites scoring better than the average of aligned sites = 543 Number in coding regions = 497 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 11 ********** No masking Map Score: 3.17856e-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: 3.17856e-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: 3.17856e-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