AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00330_mtub_reg_100.orf -o00330_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: proC 24 proC Input sequences: #1 Rv0144 101 hypothetical protein Rv0144 #2 Rv0145 88 hypothetical protein Rv0145 #3 Rv0146 42 hypothetical protein Rv0146 #4 Rv0147 94 hypothetical protein Rv0147 #5 Rv0223c 98 hypothetical protein Rv0223c #6 Rv0224c 35 hypothetical protein Rv0224c #7 aspC 30 aspC #8 Rv0338c 108 hypothetical protein Rv0338c #9 Rv0496 79 hypothetical protein Rv0496 #10 Rv0858c 156 hypothetical protein Rv0858c #11 Rv1000 125 hypothetical protein Rv1000 #12 fdxC 212 fdxC #13 Rv1178 32 hypothetical protein Rv1178 #14 rocA 84 rocA #15 argS 300 argS #16 argC 193 argC #17 argH 79 argH #18 Rv2323c 64 hypothetical protein Rv2323c #19 amiA2 61 amiA2 #20 Rv2597 216 hypothetical protein Rv2597 #21 Rv2600 81 hypothetical protein Rv2600 #22 proS 88 proS #23 efpA 22 efpA #24 cysG2 276 cysG2 #25 rpsB 283 rpsB #26 gatC 84 gatC #27 Rv3174 92 hypothetical protein Rv3174 #28 Rv3292 30 hypothetical protein Rv3292 #29 aldB 26 aldB #30 fadD3 47 fadD3 Motif number 1 ATCCGACGATCAGCAGCGCAACCATGGCCC 1 30 1 CAGCAGCGCA 0.698996 -72 GCACAGCGGCGGTGATCGCGTACGTCCAGA 1 63 0 GGTGATCGCG 0.630216 -39 TTTCGGATCTCCTCGCCGCACAGCGGCGGT 1 80 0 CCTCGCCGCA 0.956524 -22 CACTACGCTTCGGGGCCGCCGGTTAGGTCT 2 14 0 CGGGGCCGCC 0.790331 -75 CACCGGCATCACGAGAACCAGAG 3 4 1 CGGCATCACG 0.7266 -39 GGGAGCACAGGATGAGCGCC 3 33 1 GATGAGCGCC 0.526471 -10 CGCTCGGCATCGTCGCCGGCGGTCATGGCG 5 55 0 CGTCGCCGGC 0.974724 -44 CGGCGACGATGCCGAGCGCAGCGATGAGGA 5 67 1 GCCGAGCGCA 0.667492 -32 CGATGAGGAGGAGCGGCGCAT 5 88 1 GAGCGGCGCA 0.855349 -11 ACCCTAACAGGGCCCCCGGCCAACCTGTTG 10 83 1 GGCCCCCGGC 0.932836 -74 GGGCGACGATGCGCGCCGCAGCGATACCTT 10 120 0 GCGCGCCGCA 0.983061 -37 CCCGGATAGGCTCGACCGCC 10 147 1 CTCGACCGCC 0.535986 -10 CATCCAGTTCCGGCCGCGCGACGTCCGCTA 11 17 0 CGGCCGCGCG 0.97408 -109 GGCGCCGACGGGTCCGCGCGTGAGCATCCA 11 41 0 GGTCCGCGCG 0.947746 -85 CGCGCGGACCCGTCGGCGCCGATGTCTTGG 11 51 1 CGTCGGCGCC 0.974174 -75 CCGATGTCTTGGGCACCGCATGCTCGAAGG 11 69 1 GGGCACCGCA 0.990677 -57 GGGTGCTGCCCCCAGCCGGC 13 1 0 CCCAGCCGGC 0.35289 -32 TCCGCCGCGAGCGGGTGCTGCCCCC 13 18 0 CGCGAGCGGG 0.551384 -15 GCCTGCCAGCATCCCCGCCCAGGCATCGC 14 66 0 CATCCCCGCC 0.808195 -19 CACCCGCGAGGGCGGCCGCATAGTTGGCTT 15 47 0 GGCGGCCGCA 0.718169 -254 ACAATGTGATCGGCGCCACCCGCGAGGGCG 15 63 0 CGGCGCCACC 0.974094 -238 CGAATCCTGCCGGGGGCACAAGGGTTGATC 15 113 0 CGGGGGCACA 0.742852 -188 CCCTGAGCTACGGGGGCGCACGACGACACG 15 181 1 CGGGGGCGCA 0.967764 -120 TTGCGCCATGGGGCCCCGCCAGAGTAGCGC 15 211 1 GGGCCCCGCC 0.992632 -90 GTGGTCAGTGGGTAGCCGCGATGCGCTACT 15 233 0 GGTAGCCGCG 0.708932 -68 GCTACCCACTGACCACCGCAACGGATTCGA 15 247 1 GACCACCGCA 0.812625 -54 CGAGTCGAAGGGGGACCGCC 16 1 0 GGGGACCGCC 0.939442 -193 CGAGTCCCATCGGCGCCGCCCGGCGGTGTG 16 122 1 CGGCGCCGCC 0.996554 -72 TCCGCGGTGACTGCGCCGGGACTTGACACA 16 148 0 CTGCGCCGGG 0.77535 -46 GCACCGCCACGCCCGTCGGCGTGCGATTCT 17 39 1 GCCCGTCGGC 0.735975 -41 TTCTGCGTCTGCTCGCCACAGAAAA 17 65 1 GCTCGCCACA 0.706917 -15 TAGTTTTGCACCCCGCCACGACATCGCGGG 19 16 1 CCCCGCCACG 0.776387 -46 AGTGAGCTGGGGTGACCGCGGCCGAGACCT 20 71 1 GGTGACCGCG 0.614735 -146 CTGCCGGGTTCCCGGCCGGACAACTCGCCC 20 99 1 CCCGGCCGGA 0.757547 -118 ACAGCTTTCGCGGGACCGGGGGTCACAACG 20 128 0 CGGGACCGGG 0.951223 -89 GATCGACCAACCGCGGCGCAGCGGTACGAG 20 188 1 CCGCGGCGCA 0.941631 -29 CTCTCCTTTGCGTCATCGCC 21 1 0 CGTCATCGCC 0.925528 -81 TTTTATGACTGCTCGGCGGGAAGGG 22 6 0 GCTCGGCGGG 0.828053 -83 CGGCACTGCGAAAAGCCGGG 24 1 1 CGGCACTGCG 0.878674 -276 CTGCGAAAAGCCGGGCCGGAAATTCGCAGT 24 16 1 CCGGGCCGGA 0.877489 -261 GCGAATGTAACGCCACTGCGAATTTCCGGC 24 30 0 CGCCACTGCG 0.786618 -247 GGGCGCCGCGGGTCGCCACCCCTTTGGCCG 24 59 0 GGTCGCCACC 0.927408 -218 CGCGGGGACCGGGCGCCGCGGGTCGCCACC 24 69 0 GGGCGCCGCG 0.996893 -208 CGCGGCGCCCGGTCCCCGCGCTTGCGATCG 24 79 1 GGTCCCCGCG 0.974903 -198 CAGGGCCAGTGGCGATCGCAAGCGCGGGGA 24 91 0 GGCGATCGCA 0.771517 -186 GGGCGCCGCGGGTCGCCACCATCAGGGCCA 24 113 0 GGTCGCCACC 0.927408 -164 CGCGGGGACCGGGCGCCGCGGGTCGCCACC 24 123 0 GGGCGCCGCG 0.996893 -154 CGCGGCGCCCGGTCCCCGCGCTTGCGATCG 24 133 1 GGTCCCCGCG 0.974903 -144 CAGGGCCAGTGGCGATCGCAAGCGCGGGGA 24 145 0 GGCGATCGCA 0.771517 -132 GGGCGCCGCGGGTCGCCACCATCAGGGCCA 24 167 0 GGTCGCCACC 0.927408 -110 CGCGGGGACCGGGCGCCGCGGGTCGCCACC 24 177 0 GGGCGCCGCG 0.996893 -100 CGCGGCGCCCGGTCCCCGCGCTTGCGATCG 24 187 1 GGTCCCCGCG 0.974903 -90 CAGGGCCAGTGGCGATCGCAAGCGCGGGGA 24 199 0 GGCGATCGCA 0.771517 -78 GGGCGCCGCGGGTCGCCACCATCAGGGCCA 24 221 0 GGTCGCCACC 0.927408 -56 CGCGGGGACCGGGCGCCGCGGGTCGCCACC 24 231 0 GGGCGCCGCG 0.996893 -46 CGCGGCGCCCGGTCCCCGCGCTTGCGATCG 24 241 1 GGTCCCCGCG 0.974903 -36 CAAGCCTAGTGGCGATCGCAAGCGCGGGGA 24 253 0 GGCGATCGCA 0.771517 -24 TCGCCGCCGCCCGTTTTGTGG 25 2 1 CGCCGCCGCC 0.800232 -282 GTGATTTTCCCGGCAGCGGAATCCACAGCG 25 42 0 CGGCAGCGGA 0.899903 -242 GCGCAGCTCGCATCGGCGGGCTGACTTCGC 25 97 1 CATCGGCGGG 0.570299 -187 TCCCGGAAAGGCGGGCCGCGGTGCAGACAC 25 127 0 GCGGGCCGCG 0.902562 -157 GGAACCGCCGCGGGACCGCCCCGGCATGCT 25 165 0 CGGGACCGCC 0.939826 -119 AATCCCCGAAGGGAACCGCCGCGGGACCGC 25 176 0 GGGAACCGCC 0.904051 -108 CTCCCGGGTCCGGCATCGCGGCAGACGCCA 25 208 1 CGGCATCGCG 0.965503 -76 GGCTGAAGCCGGGCCCTGGCGTCTGCCGCG 25 224 0 GGGCCCTGGC 0.635339 -60 GTTGTTCGCCCGGCATCGGCTGAAGCCGGG 25 241 0 CGGCATCGGC 0.898845 -43 TTTCGGCAGCCGGCGTCGGCCGTCCGGCCA 26 46 1 CGGCGTCGGC 0.951319 -39 AAGCCTAATGGGTGGCCGGACGGCCGACGC 26 58 0 GGTGGCCGGA 0.923524 -27 GCGGCACTGCCGTTGCGATAG 28 20 0 CGGCACTGCC 0.882924 -11 ********** Masking position 7 Map Score: 142.315 Number of sites scoring better than the average of aligned sites = 77313 Number in coding regions = 72841 Number in noncoding regions = 4472 Number of orfs with sites within 600 bp upstream = 1387 Fraction of orfs with sites within 600 bp upstream = 0.222775 Motif number 2 CCGCTGTGCGGCGAGGAGATCCGAAACG 1 84 1 GCGAGGAGTC 0.557834 -18 ACATCACTACGCTTCGGGGCCGCCGGTTAGG 2 17 0 GCTTCGGGCC 0.507809 -72 ATGACCGCCGGCGACGATGCCGAGCGCAGCG 5 59 1 GCGACGATCC 0.872887 -40 TGGTCGATAGCCTAGCGGGCCGTAGGGTGTG 6 11 1 CCTAGCGGCC 0.889596 -25 GCTGTCCTAACCTACCGGTCG 8 1 0 CCTACCGGCG 0.913277 -108 TTGTTTTCGTGCGATTGGGCGTGCTGGACGT 9 34 1 GCGATTGGCG 0.555901 -46 TTAGGGTGCCGGTACGGGACCTAGTCTTGAA 10 59 0 GGTACGGGCC 0.358096 -98 CCCTAACAGGGCCCCCGGCCAACCTGTTGGT 10 84 1 GCCCCCGGCA 0.832721 -73 GCCTATCCGGGCGACGATGCGCGCCGCAGCG 10 127 0 GCGACGATCG 0.842156 -30 TTAGCGGACGTCGCGCGGCCGGAACTGGATG 11 16 1 TCGCGCGGCG 0.781026 -110 GACATCGGCGCCGACGGGTCCGCGCGTGAGC 11 46 0 CCGACGGGCC 0.982115 -80 GCCAAGGCTTCCTCCGGGCCCTGCTGAGGCA 12 135 0 CCTCCGGGCC 0.69789 -78 AGCGGGTGCTGCCCCCAGCCGGC 13 3 0 GCCCCCAGCG 0.942925 -30 TCCGCCGCGAGCGGGTGCTGCCCCCAG 13 16 0 GCGAGCGGTG 0.815946 -17 GCCTGCCAGCATCCCCGCCCAGGCA 14 70 0 GCCAGCATCC 0.662538 -15 TCGGCGCCACCCGCGAGGGCGGCCGCATAGT 15 53 0 CCGCGAGGCG 0.708815 -248 CAACCCTTGTGCCCCCGGCAGGATTCGAACC 15 116 1 GCCCCCGGAG 0.708676 -185 TATCCCCTGAGCTACGGGGGCGCACGACGAC 15 177 1 GCTACGGGGC 0.356096 -124 GACACGTTGCGCCATGGGGCCCCGCCAGAGT 15 205 1 GCCATGGGCC 0.691193 -96 TCCACTAGCTGCGCCGAGTCGAAGGGGGACC 16 14 0 GCGCCGAGCG 0.98083 -180 CCCATCGGCGCCGCCCGGCGGTGTGTCAAGT 16 127 1 CCGCCCGGGG 0.502899 -67 CGCGGTGACTGCGCCGGGACTTGACACACCG 16 145 0 GCGCCGGGCT 0.863996 -49 CGGTTCTCCCGCGAGCAGACGCAGAATCGCA 17 11 1 GCGAGCAGCG 0.956935 -69 TTTTCTGTGGCGAGCAGACGCAGAATCGCA 17 60 0 GCGAGCAGCG 0.956935 -20 GAGACTATCGGCGCGGATACCCGCGATGTCG 19 34 0 GCGCGGATCC 0.891558 -28 GGGGTGACCGCGGCCGAGACCTGCCGGGTTC 20 79 1 CGGCCGAGCC 0.572145 -138 GTCACAACGGGCGAGTTGTCCGGCCGGGAAC 20 106 0 GCGAGTTGCC 0.605523 -111 CCCGTTGTGACCCCCGGTCCCGCGAAAGCTG 20 126 1 CCCCCGGTCC 0.727758 -91 CCATCGATATGCGACCGATCGACCAACCGCG 20 172 1 GCGACCGACG 0.722548 -45 GCATACCCTCTCGTACCGCTGCGCCGC 20 200 0 CCTCTCGTCC 0.281956 -17 CCCTTCCCGCCGAGCAGTCATAAAAGCTCC 22 10 1 CCGAGCAGCA 0.462037 -79 AGACGCAAAAGCGCCCAGGTCTGCCCGAAAA 22 43 0 GCGCCCAGTC 0.862047 -46 GCCTAATTCGCCGAGCAGACGCAAAAGCGCC 22 59 0 CCGAGCAGCG 0.924513 -30 GCGACCCGCGGCGCCCGGTCCCCGCGCTTGC 24 73 1 GCGCCCGGCC 0.993633 -204 CGCCCGGTCCCCGCGCTTGCGATCGCCACTG 24 84 1 CCGCGCTTCG 0.639745 -193 GCTTGCGATCGCCACTGGCCCTGATGGTGGC 24 98 1 GCCACTGGCC 0.879851 -179 GCGACCCGCGGCGCCCGGTCCCCGCGCTTGC 24 127 1 GCGCCCGGCC 0.993633 -150 CGCCCGGTCCCCGCGCTTGCGATCGCCACTG 24 138 1 CCGCGCTTCG 0.639745 -139 GCTTGCGATCGCCACTGGCCCTGATGGTGGC 24 152 1 GCCACTGGCC 0.879851 -125 GCGACCCGCGGCGCCCGGTCCCCGCGCTTGC 24 181 1 GCGCCCGGCC 0.993633 -96 CGCCCGGTCCCCGCGCTTGCGATCGCCACTG 24 192 1 CCGCGCTTCG 0.639745 -85 GCTTGCGATCGCCACTGGCCCTGATGGTGGC 24 206 1 GCCACTGGCC 0.879851 -71 GCGACCCGCGGCGCCCGGTCCCCGCGCTTGC 24 235 1 GCGCCCGGCC 0.993633 -42 CGCCCGGTCCCCGCGCTTGCGATCGCCACTA 24 246 1 CCGCGCTTCG 0.639745 -31 GATGCGAGCTGCGCCGAGTAGTTTACACCGA 25 80 0 GCGCCGAGAG 0.639617 -204 CGAAGTCAGCCCGCCGATGCGAGCTGCGCCG 25 95 0 CCGCCGATCG 0.852688 -189 GAAGGGAACCGCCGCGGGACCGCCCCGGCAT 25 168 0 GCCGCGGGCC 0.755201 -116 TCGGGGATTTCCTCCCGGGTCCGGCATCGCG 25 197 1 CCTCCCGGTC 0.631025 -87 ACACCCCTTAGCGCGTGTACCGTCAAAGCAC 27 38 1 GCGCGTGTCC 0.85196 -55 ******** ** Masking position 2 Map Score: 67.081 Number of sites scoring better than the average of aligned sites = 42175 Number in coding regions = 39273 Number in noncoding regions = 2902 Number of orfs with sites within 600 bp upstream = 1270 Fraction of orfs with sites within 600 bp upstream = 0.203983 Motif number 3 CGAGCGCATCCGACTGACCTTATATATCCGGA 4 10 1 CCGCTGACCA 0.806594 -85 CTACCCACGTCCAGCACGCCCAATCGCACGAAA 9 38 0 CCACACGCCA 0.91704 -42 AACAGGGCCCCCGGCCAACCTGTTGGTTGGGCA 10 88 1 CCGCCAACCT 0.418902 -69 GCATCGTCGCCCGGATAGGCTCGACCGCC 10 138 1 CCGATAGGCG 0.86333 -19 GGCAGCATAGACGGCAAGCCGGATTGCTATGCA 12 14 1 ACGCAAGCCA 0.596219 -199 ACGCATTGCCTCAGCAGGGCCCGGAGGAAGCCT 12 129 1 TCACAGGGCG 0.745192 -84 GGGCTGCTGTCCACCTCGCCAAGGCTTCCTCCG 12 150 0 CCACTCGCCG 0.937376 -63 GCCGGCTGGGGGCAGCACCCGCTC 13 2 1 CCGCTGGGGA 0.5839 -31 ACTAGCAAGTCCGCCAGATCTTGTCTGATCGGC 14 24 1 CCGCAGATCG 0.654084 -61 GCCAGCATCCCCGCCCAGGCATCGCAAATGTTT 14 58 0 CCGCCAGGCC 0.857954 -27 TGCCTCCGGAGCAGAAGGCCGCAGGTTCGAATC 15 137 0 GCAAAGGCCA 0.243351 -164 CGAAGCCCAACCACCTCAGCCCATAGGATGGAC 15 274 1 CCACTCAGCA 0.46583 -27 CGGTCCCCCTTCGACTCGGCGCAGCTAGTGGAC 16 13 1 TCGCTCGGCA 0.669759 -181 GACATAAGACCCAACTAGGCTGAATTTCCCGTG 16 52 0 CCACTAGGCA 0.757103 -142 CCCATCGGCGCCGCCCGGCGGTGTGTCAAGTCC 16 127 1 CCGCCGGCGG 0.870604 -67 CAGAATCGCACCGCCACGCCCGTCGGCGTGCGA 17 32 1 CCGCACGCCT 0.895794 -48 CAATAGTTTTGCACCCCGCCACGACATCGCGGG 19 13 1 GCACCCGCCG 0.787905 -49 GGCCGGGAACCCGGCAGGTCTCGGCCGCGGTCA 20 83 0 CCGCAGGTCG 0.91405 -134 ATGCGACCGATCGACCAACCGCGGCGCAGCGGT 20 180 1 TCGCCAACCG 0.511802 -37 CCCTTCCCGCCGAGCAGTCATAAA 22 2 1 CCTCCCGCCG 0.753885 -87 CTCCCCTTTTCGGGCAGACCTGGGCGCTTTTGC 22 37 1 CGGCAGACCG 0.601535 -52 AGGCGGCAAGCCTAATTCGCCGAGC 22 74 0 GCGCAAGCCA 0.813776 -15 CGGCACTGCGAAAAGCCGGGCCGGAAATTC 24 8 1 GCGAAAGCCG 0.681676 -269 CGGGTCGCCACCATCAGGGCCAGTGGCGATCGC 24 102 0 CCACAGGGCG 0.969445 -175 CGGGTCGCCACCATCAGGGCCAGTGGCGATCGC 24 156 0 CCACAGGGCG 0.969445 -121 CGGGTCGCCACCATCAGGGCCAGTGGCGATCGC 24 210 0 CCACAGGGCG 0.969445 -67 CCGCCAAGCCTAGTGGCGATCGC 24 264 0 CCGCAAGCCG 0.9876 -13 GTAGTTTACACCGACCCAGCTGGTGATTTTCCC 25 61 0 CCGCCCAGCG 0.876202 -223 TCGGCGCAGCTCGCATCGGCGGGCTGACTTCGC 25 94 1 TCGATCGGCG 0.498345 -190 GTTGCGGATCCCGGAAAGGCGGGCCGCGGTGCA 25 132 0 CCGAAAGGCG 0.929236 -152 CGCCGCGGGACCGCCCCGGCATGCTGTTGCGGA 25 157 0 CCGCCCGGCG 0.988481 -127 ATCGCGGCAGACGCCAGGGCCCGGCTTCAGCCG 25 222 1 ACGCAGGGCG 0.872495 -62 GTTGTTCGCCCGGCATCGGCTGAAGCCGGGCCC 25 238 0 CGGATCGGCA 0.184401 -46 ACGCCGGCTGCCGAAACGCCGTGGATACATCGT 26 29 0 CCGAACGCCG 0.95736 -56 CCGGCGTCGGCCGTCCGGCCACCCATTAGGCTT 26 55 1 CCGCCGGCCC 0.917854 -30 GACCGCAAAGCCTAATGGGTGGCCG 26 70 0 CCGAAAGCCA 0.831874 -15 AGCGCGTGTACCGTCAAAGCACAAAGTACACCA 27 47 1 CCGCAAAGCA 0.823817 -46 *** ****** * Masking position 10 Map Score: 45.6264 Number of sites scoring better than the average of aligned sites = 28610 Number in coding regions = 26478 Number in noncoding regions = 2132 Number of orfs with sites within 600 bp upstream = 1071 Fraction of orfs with sites within 600 bp upstream = 0.172021 Motif number 4 GCCATGGTTGCGCTGCTGATCGTCGGATAG 1 28 0 CGCTGCTGAT 0.314906 -74 CTTCGGGGCCGCCGGTTAGGTCTCGG 2 7 0 GCCGGTTAGG 0.577242 -82 TAACCGGCGGCCCCGAAGCGTAGTGATGTG 2 19 1 CCCCGAAGCG 0.741471 -70 ATCCTAGTCACCCGGTTGAACCAGCAATAG 4 61 0 CCCGGTTGAA 0.421367 -34 ACACCCTACGGCCCGCTAGGCTATCGACCA 6 11 0 GCCCGCTAGG 0.68413 -25 CGTATCTTCGCCCGGCTAGTTTGTTTTCGT 9 14 1 CCCGGCTAGT 0.939764 -66 TGGCCGGGGGCCCTGTTAGGGTGCCGGTAC 10 75 0 CCCTGTTAGG 0.779084 -82 CGCATCGTCGCCCGGATAGGCTCGACCGCC 10 137 1 CCCGGATAGG 0.965533 -20 AAGACATCGGCGCCGACGGGTCCGCGCGTG 11 49 0 CGCCGACGGG 0.824911 -77 TTCCTCCGGGCCCTGCTGAGGCAATGCGTT 12 128 0 CCCTGCTGAG 0.767806 -85 GCCGGCTGGGGGCAGCACCC 13 1 1 GCCGGCTGGG 0.808671 -32 CCCTTGTGCCCCCGGCAGGATTCGAACCTG 15 119 1 CCCGGCAGGA 0.858058 -182 CGCCGGGCGGCGCCGATGGGACTCGAAGTT 16 117 0 CGCCGATGGG 0.940437 -77 CAGAATCGCACGCCGACGGGCGTGGCGGTG 17 40 0 CGCCGACGGG 0.824911 -40 CGGGTATCCGCGCCGATAGTCTCGTACCCC 19 42 1 CGCCGATAGT 0.628604 -20 CTCACCGACACCCGGATGGTGCACCAGTGA 20 46 1 CCCGGATGGT 0.981036 -171 CGGCCGGGAACCCGGCAGGTCTCGGCCGCG 20 87 0 CCCGGCAGGT 0.89099 -130 CTGCCGGGTTCCCGGCCGGACAACTCGCCC 20 99 1 CCCGGCCGGA 0.721657 -118 ACCGCTGCGCCGCGGTTGGTCGATCGGTCG 20 183 0 CGCGGTTGGT 0.847156 -34 CCCAGGTCTGCCCGAAAAGGGGAGCTTTTA 22 31 0 CCCGAAAAGG 0.300877 -58 TCGCCACTGGCCCTGATGGTGGCGACCCGC 24 106 1 CCCTGATGGT 0.942452 -171 TCGCCACTGGCCCTGATGGTGGCGACCCGC 24 160 1 CCCTGATGGT 0.942452 -117 TCGCCACTGGCCCTGATGGTGGCGACCCGC 24 214 1 CCCTGATGGT 0.942452 -63 TGGTGATTTTCCCGGCAGCGGAATCCACAG 25 44 0 CCCGGCAGCG 0.513058 -240 TTTACACCGACCCAGCTGGTGATTTTCCCG 25 60 0 CCCAGCTGGT 0.744828 -224 TGTTGCGGATCCCGGAAAGGCGGGCCGCGG 25 136 0 CCCGGAAAGG 0.937373 -148 GGGAGGAAATCCCCGAAGGGAACCGCCGCG 25 183 0 CCCCGAAGGG 0.964234 -101 CGATGCCGGACCCGGGAGGAAATCCCCGAA 25 196 0 CCCGGGAGGA 0.630244 -88 GCCCTGTAGGCTAACCTACCA 30 2 1 CCCTGTAGGC 0.372747 -46 ********** Masking position 3 Map Score: 40.5529 Number of sites scoring better than the average of aligned sites = 7765 Number in coding regions = 7165 Number in noncoding regions = 600 Number of orfs with sites within 600 bp upstream = 450 Fraction of orfs with sites within 600 bp upstream = 0.0722775 Motif number 5 CGGTGATAACCGCGATCCTAGTCACCCGG 4 76 0 CCGCGATCCT 0.929863 -19 GGATGCTCACGCGCGGACCCGTCGGCGCCG 11 42 1 GCGCGGACCC 0.957543 -84 CCAAGGCTTCCTCCGGGCCCTGCTGAGGCA 12 135 0 CTCCGGGCCC 0.914216 -78 GTTGTCCGATCCTACTAGCAAGT 14 4 1 GTCCGATCCT 0.847636 -81 GGGCGTGGCGGTGCGATTCTGCGTCTGCTC 17 23 0 GTGCGATTCT 0.472432 -57 GCCCGTCGGCGTGCGATTCTGCGTCTGCTC 17 49 1 GTGCGATTCT 0.472432 -31 CAGGTCTCGGCCGCGGTCACCCCAGCTCAC 20 72 0 CCGCGGTCAC 0.887772 -145 GCCGAGACCTGCCGGGTTCCCGGCCGGACA 20 91 1 GCCGGGTTCC 0.828401 -126 CCGTTGTGACCCCCGGTCCCGCGAAAGCTG 20 127 1 CCCCGGTCCC 0.995277 -90 ATCAGCCTTACCCCGATCCTGCATGGG 21 65 1 CCCCGATCCT 0.942842 -17 GACCCGCGGCGCCCGGTCCCCGCGCTTGCG 24 75 1 GCCCGGTCCC 0.99696 -202 GACCCGCGGCGCCCGGTCCCCGCGCTTGCG 24 129 1 GCCCGGTCCC 0.99696 -148 GACCCGCGGCGCCCGGTCCCCGCGCTTGCG 24 183 1 GCCCGGTCCC 0.99696 -94 GACCCGCGGCGCCCGGTCCCCGCGCTTGCG 24 237 1 GCCCGGTCCC 0.99696 -40 CAGCATGCCGGGGCGGTCCCGCGGCGGTTC 25 164 1 GGGCGGTCCC 0.979232 -120 GGCGGTCCCGCGGCGGTTCCCTTCGGGGAT 25 175 1 CGGCGGTTCC 0.859028 -109 CTGGCGTCTGCCGCGATGCCGGACCCGGGA 25 209 0 CCGCGATGCC 0.828991 -75 CGCGGCAGACGCCAGGGCCCGGCTTCAGCC 25 224 1 GCCAGGGCCC 0.791475 -60 ********** Masking position 5 Map Score: 35.9684 Number of sites scoring better than the average of aligned sites = 2881 Number in coding regions = 2628 Number in noncoding regions = 253 Number of orfs with sites within 600 bp upstream = 230 Fraction of orfs with sites within 600 bp upstream = 0.0369419 Motif number 6 CCGAGACCTAACCGGCGGCCCCGAAGCGTA 2 11 1 ACCGGCGGCC 0.839868 -78 AGCAACACGGTCCATCTGCTG 9 69 1 TCCATCTGCT 0.668309 -11 CCGGCCGCGCGACGTCCGCTAACTCGG 11 8 0 GACGTCCGCT 0.760697 -118 AGCATCCAGTTCCGGCCGCGCGACGTCCGC 11 19 0 TCCGGCCGCG 0.92721 -107 CACGCGCGGACCCGTCGGCGCCGATGTCTT 11 49 1 CCCGTCGGCG 0.953709 -77 ACTTGGCACATGCGTCGGCGTACACGGTCA 12 60 0 TGCGTCGGCG 0.988549 -153 AAGCCAACTATGCGGCCGCCCTCGCGGGTG 15 47 1 TGCGGCCGCC 0.65141 -254 CGAACCTGCGGCCTTCTGCTCCGGAGGCAG 15 141 1 GCCTTCTGCT 0.581359 -160 CAGGGGATAGAGCGTCTGCCTCCGGAGCAG 15 156 0 AGCGTCTGCC 0.908033 -145 GACTCGAAGTTGCGTCCGCGAAAACGTGCG 16 98 0 TGCGTCCGCG 0.977341 -96 GGTGCGATTCTGCGTCTGCTCGCGGGAGAA 17 14 0 TGCGTCTGCT 0.974854 -66 CACCGCCACGCCCGTCGGCGTGCGATTCTG 17 40 1 CCCGTCGGCG 0.953709 -40 CGTGCGATTCTGCGTCTGCTCGCCACAGAA 17 58 1 TGCGTCTGCT 0.974854 -22 TGGGCGCTTTTGCGTCTGCTCGGCGAATTA 22 57 1 TGCGTCTGCT 0.974854 -32 CCACAAAACGGGCGGCGGCGA 25 2 0 GGCGGCGGCG 0.893066 -282 GCCGGGCCCTGGCGTCTGCCGCGATGCCGG 25 217 0 GGCGTCTGCC 0.959728 -67 TTGTTCGCCCGGCATCGGCTGAAGCCGGGC 25 240 0 GGCATCGGCT 0.875917 -44 TTCGGCAGCCGGCGTCGGCCGTCCGGCCAC 26 47 1 GGCGTCGGCC 0.985646 -38 ********** Masking position 6 Map Score: 35.155 Number of sites scoring better than the average of aligned sites = 9170 Number in coding regions = 8578 Number in noncoding regions = 592 Number of orfs with sites within 600 bp upstream = 404 Fraction of orfs with sites within 600 bp upstream = 0.0648892 Motif number 7 CCTGGGCCATGGTTGCGCTGCTGATCGTCG 1 33 0 GGTTGCGCTG 0.761881 -69 AGGGAGCACAGGATGAGCGCC 3 32 1 GGATGAGCGC 0.661957 -11 AAGGTCAGTCGGATGCGCTCG 4 2 0 GGATGCGCTC 0.958196 -93 TCCTCCTCATCGCTGCGCTCGGCATCGTCG 5 70 0 CGCTGCGCTC 0.911677 -29 GCAGGGGTTCCATTGAGTGCTACGAATTGG 8 78 1 CATTGAGTGC 0.296531 -31 ATCCGGGCGACGATGCGCGCCGCAGCGATA 10 124 0 CGATGCGCGC 0.975792 -33 CCTGCTGAGGCAATGCGTTCGGTTACTGAT 12 117 0 CAATGCGTTC 0.761269 -96 ATTGTTGTAGCCATGCGTGAGGCTAGATCA 15 88 1 CCATGCGTGA 0.67617 -213 CACGACGACACGTTGCGCCATGGGGCCCCG 15 199 1 CGTTGCGCCA 0.718062 -102 TGGGTAGCCGCGATGCGCTACTCTGGCGGG 15 225 0 CGATGCGCTA 0.905562 -76 TGTGGTGATTCGTTGCGTGCTTAGAACGGA 18 20 0 CGTTGCGTGC 0.965773 -45 TGATACATTGCGTTAACCTCGAATC 18 50 0 CATTGCGTTA 0.549038 -15 CGGTCCCCGCGCTTGCGATCGCCACTGGCC 24 88 1 GCTTGCGATC 0.910509 -189 CGGTCCCCGCGCTTGCGATCGCCACTGGCC 24 142 1 GCTTGCGATC 0.910509 -135 CGGTCCCCGCGCTTGCGATCGCCACTGGCC 24 196 1 GCTTGCGATC 0.910509 -81 CGGTCCCCGCGCTTGCGATCGCCACTAGGC 24 250 1 GCTTGCGATC 0.910509 -27 GTCAGCCCGCCGATGCGAGCTGCGCCGAGT 25 92 0 CGATGCGAGC 0.961695 -192 GCGGCACTGCCGTTGCGATAGTCTCCGGCC 28 11 0 CGTTGCGATA 0.902389 -20 ACCACTGACGCGTTACGAGCCCAG 29 13 1 CGTTACGAGC 0.631727 -14 ********** Masking position 4 Map Score: 19.6213 Number of sites scoring better than the average of aligned sites = 5440 Number in coding regions = 4986 Number in noncoding regions = 454 Number of orfs with sites within 600 bp upstream = 358 Fraction of orfs with sites within 600 bp upstream = 0.0575008 Motif number 8 GGTTGCGCTGCTGATCGTCGGATAGCGCTG 1 23 0 CTGATCGTCG 0.956412 -79 GCGATCACCGCCGCTGTGCGGCGAGGAGAT 1 74 1 CCGCTGTGCG 0.764019 -28 CCGAAGCGTAGTGATGTGCCACACAAATCG 2 31 1 GTGATGTGCC 0.481667 -58 CCTCATCGCTGCGCTCGGCATCGTCGCCGG 5 66 0 GCGCTCGGCA 0.580162 -33 GGCCCGCTAGGCTATCGACCA 6 2 0 GCTATCGACC 0.126765 -34 GCGATTGGGCGTGCTGGACGTGGGTAGCAA 9 44 1 GTGCTGGACG 0.876807 -36 CAGCAGATGGACCGTGTTGCTAC 9 67 0 CAGATGGACC 0.406264 -13 CGATCTATTGGTGATGGGCGGATCGTGTCA 11 104 0 GTGATGGGCG 0.970166 -22 CATGTGCCAAGTGGTCGACGTGTATGTGCA 12 78 1 GTGGTCGACG 0.584921 -135 CAGATCTTGTCTGATCGGCCAAACATTTGC 14 38 1 CTGATCGGCC 0.971007 -47 CTACAACAATGTGATCGGCGCCACCCGCGA 15 68 0 GTGATCGGCG 0.974938 -233 AACTTCGAGTCCCATCGGCGCCGCCCGGCG 16 117 1 CCCATCGGCG 0.806874 -77 CCCATCGGCGCCGCCCGGCGGTGTGTCAAG 16 127 1 CCGCCCGGCG 0.906688 -67 GAATCGCACGCCGACGGGCGTGGCGGTGCG 17 38 0 CCGACGGGCG 0.908326 -42 CGATATGCGACCGATCGACCAACCGCGGCG 20 176 1 CCGATCGACC 0.879953 -41 CGGGGTAAGGCTGATGGTCCCGAAATCGAC 21 50 0 CTGATGGTCC 0.881999 -32 GCTTTTATGACTGCTCGGCGGGAAGGG 22 8 0 CTGCTCGGCG 0.985375 -81 GCTTTTGCGTCTGCTCGGCGAATTAGGCTT 22 62 1 CTGCTCGGCG 0.985375 -27 GCCACTGGCCCTGATGGTGGCGACCCGCGG 24 108 1 CTGATGGTGG 0.753029 -169 GCCACTGGCCCTGATGGTGGCGACCCGCGG 24 162 1 CTGATGGTGG 0.753029 -115 GCCACTGGCCCTGATGGTGGCGACCCGCGG 24 216 1 CTGATGGTGG 0.753029 -61 TCGGTGTAAACTACTCGGCGCAGCTCGCAT 25 80 1 CTACTCGGCG 0.738146 -204 ********** Masking position 5 Map Score: 23.5387 Number of sites scoring better than the average of aligned sites = 16711 Number in coding regions = 15714 Number in noncoding regions = 997 Number of orfs with sites within 600 bp upstream = 688 Fraction of orfs with sites within 600 bp upstream = 0.110504 Motif number 9 CGTTTCGGATCTCCTCGCCGCA 1 90 0 GTTTCGATCT 0.6495 -12 GGCGCTCATCCTGTGCTCCCT 3 32 0 GGCGCTATCC 0.910417 -11 CACAAAAGGGGGTTTGGATCCTTCTTCAAGA 10 35 1 GGTTTGATCC 0.917853 -122 GTATCGCTGCGGCGCGCATCGTCGCCCGGAT 10 123 1 GGCGCGATCG 0.895203 -34 TGGATGCTCACGCGCGGACCCGTCGGCGCCG 11 41 1 CGCGCGACCC 0.888752 -85 GGTTCTTACCCCGACGAATTT 15 1 1 GGTTCTACCC 0.880306 -300 GAAGGCCGCAGGTTCGAATCCTGCCGGGGGC 15 126 0 GGTTCGATCC 0.982512 -175 AGGTGGTTGGGCTTCGAATCCGTTGCGGTGG 15 259 0 GCTTCGATCC 0.90424 -42 CACAATAGTTTTGCACCCCGCCACGACA 19 8 1 GTTTTGACCC 0.839726 -54 CGAGACTATCGGCGCGGATACCCGCGATGTC 19 35 0 GGCGCGATAC 0.840956 -27 CGCGCCGATAGTCTCGTACCCC 19 50 1 GTCTCGACCC 0.964049 -12 CAACTCGCCCGTTGTGACCCCCGGTCCCGCG 20 119 1 GTTGTGCCCC 0.533083 -98 CCGGCATGCTGTTGCGGATCCCGGAAAGGCG 25 144 0 GTTGCGATCC 0.972725 -140 ****** **** Masking position 8 Map Score: 7.4567 Number of sites scoring better than the average of aligned sites = 2802 Number in coding regions = 2525 Number in noncoding regions = 277 Number of orfs with sites within 600 bp upstream = 227 Fraction of orfs with sites within 600 bp upstream = 0.03646 Motif number 10 CAAATCGTATAGGTTACCTAACTTACTTAGGT 2 54 1 AGGTACCTAC 0.875263 -35 GGCGGTCATGGCGTCACCCTACCCAAGCCGAA 5 36 0 GCGTACCCTC 0.95282 -63 CTGGCACACCCTACGGCCCGCTAG 6 22 0 GGCAACCCTC 0.927767 -14 CCGCGAGAAAGGCTGTCCTAACCTACCGGTCG 8 11 0 GGCTTCCTAC 0.873758 -98 CTACGAATTGGGGTGACCTTCC 8 97 1 GGGTACCTTC 0.990173 -12 GCGCGCCGCAGCGATACCTTGCCCAACCAACA 10 108 0 GCGAACCTTC 0.928856 -49 AGCGGGTTACCTTACAGTATTC 23 8 0 GGGTACCTTC 0.990177 -15 GCCCTGTAGGCTAACCTACCAAGCACTTGC 30 9 1 GGCTACCTAC 0.974761 -39 **** ***** * Masking position 7 Map Score: 4.40672 Number of sites scoring better than the average of aligned sites = 175 Number in coding regions = 154 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 11 GTCGGATAGCGCTGGCCAACTCTGGG 1 6 0 GCTGGCCACT 0.977583 -96 GTTGGCCAGCGCTATCCGACGATCAGCAGCG 1 17 1 GCTATCCGCG 0.866308 -85 GATCACCGCCGCTGTGCGGCGAGGAGATCCG 1 76 1 GCTGTGCGCG 0.957157 -26 TCATCGCTGCGCTCGGCATCGTCGCCGGCGG 5 63 0 GCTCGGCACG 0.746336 -36 CATCCTGACATCTGTGCGACTTTCGCCGCGA 8 37 0 TCTGTGCGCT 0.644499 -72 GTCGAGCCTATCCGGGCGACGATGCGCGCCG 10 132 0 TCCGGGCGCG 0.722927 -25 TAGCAATCCGGCTTGCCGTCTATGCTGCCCG 12 12 0 GCTTGCCGCT 0.970687 -201 AAGCCGGATTGCTATGCAACTAGGTGCATAT 12 29 1 GCTATGCACT 0.469399 -184 TGTGTGGGCTGCTGTCCACCTCGCCAAGGCT 12 157 0 GCTGTCCACT 0.941275 -56 TCAGACAAGATCTGGCGGACTTGCTAGTAGG 14 21 0 TCTGGCGGCT 0.805286 -64 GGCGGTCCCCCTTCGACTCGGC 16 2 1 GCGGTCCCCT 0.576646 -192 TTGACACACCGCCGGGCGGCGCCGATGGGAC 16 125 0 GCCGGGCGCG 0.956725 -69 GGCGAATTAGGCTTGCCGCCT 22 78 1 GCTTGCCGCT 0.970687 -11 CGGTCCCCGCGCTTGCGATCGCCACTGGCCC 24 88 1 GCTTGCGACG 0.889102 -189 CGGTCCCCGCGCTTGCGATCGCCACTGGCCC 24 142 1 GCTTGCGACG 0.889102 -135 CGGTCCCCGCGCTTGCGATCGCCACTGGCCC 24 196 1 GCTTGCGACG 0.889102 -81 CGGTCCCCGCGCTTGCGATCGCCACTAGGCT 24 250 1 GCTTGCGACG 0.889102 -27 GCTCGCATCGGCGGGCTGACTTCGCGTGTCT 25 102 1 GCGGGCTGCT 0.663504 -182 TGTCTGCACCGCGGCCCGCCTTTCCGGGATC 25 128 1 GCGGCCCGCT 0.772827 -156 GCCGGCGTCGGCCGTCCGGCCACCCATTAGG 26 54 1 GCCGTCCGCC 0.70692 -31 ******** ** Masking position 2 Map Score: 19.2256 Number of sites scoring better than the average of aligned sites = 18947 Number in coding regions = 17799 Number in noncoding regions = 1148 Number of orfs with sites within 600 bp upstream = 698 Fraction of orfs with sites within 600 bp upstream = 0.112111 Motif number 12 TCACGATTTGGCACCTGACAGCAAATTCCA 7 11 1 GCACCGAGCA 0.98864 -20 CAGCAGATGGACCGTGTTGCTACCCACGTCC 9 59 0 GGACCTTGCT 0.894186 -21 TCGCGCGGCCGGAACTGGATGCTCACGCGCGGA 11 26 1 GGAACGTGCT 0.894186 -100 GCTCACGCGCGGACCCGTCGGCGCCGATGTCTT 11 46 1 GGACCGGGCG 0.961297 -80 TCGTGTCAACGCACCTTCGAGCATGCGGTGCCC 11 79 0 GCACCTAGCA 0.93059 -47 CGGTCAATATGCACCTAGTTGCATAGCAATCCG 12 33 0 GCACCATGCA 0.903543 -180 GCTGGGGGCAGCACCCGCTCGCGGCGGA 13 15 1 GCACCGCGCG 0.963478 -18 CGTTATGCAACAGTTTGCAAACTCATTCC 16 175 0 GCAACGTGCA 0.942915 -19 CCCGGATGGTGCACCAGTGAGCTGGGGTGACCG 20 56 1 GCACCGAGCT 0.98864 -161 GGCGCAGCTCGCATCGGCGGGCTGACTTCGCGT 25 96 1 GCATCGGGCT 0.863076 -188 CCGCGGGACCGCCCCGGCATGCTGTTGCGGATC 25 155 0 GCCCCGTGCT 0.948469 -129 CCGCGATGCCGGACCCGGGAGGAAATCCCCGAA 25 196 0 GGACCGAGGA 0.825623 -88 ***** * **** Masking position 5 Map Score: 9.0558 Number of sites scoring better than the average of aligned sites = 1710 Number in coding regions = 1605 Number in noncoding regions = 105 Number of orfs with sites within 600 bp upstream = 120 Fraction of orfs with sites within 600 bp upstream = 0.019274 Motif number 13 CCCAGAGTTGGCCAGCGCTATC 1 3 1 CAGAGTTGGC 0.990042 -99 CCGAGTTAGCGGACGTCGCG 11 1 1 CCGAGTTAGC 0.953588 -125 AGGGCGGCCGCATAGTTGGCTTCGTGGTCT 15 39 0 CATAGTTGGC 0.97784 -262 GGAAATTCAGCCTAGTTGGGTCTTATGTCA 16 56 1 CCTAGTTGGG 0.930483 -138 CGTTGTGCCACAGTGTTGGCC 26 2 0 CAGTGTTGGC 0.96797 -83 ********** Masking position 6 Map Score: 1.32306 Number of sites scoring better than the average of aligned sites = 409 Number in coding regions = 382 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 14 GGAACACGTTCTCGTTTCGCGTTCGGCTTGGG 5 15 1 CCGTTTGCGT 0.697007 -84 GACATCTGTGCGACTTTCGCCGCGAGAAAGGC 8 30 0 CACTTTGCCG 0.91215 -79 GGATCCAAACCCCCTTTTGTGGAATTTGTGGA 10 24 0 CCCTTTGTGG 0.959978 -133 CCGAGTTAGCGGACGTCGCGCG 11 1 1 CGAGTTGCGG 0.797489 -125 CCGCGATGCGCTACTCTGGCGGGGCCCCATGG 15 216 0 CACTCTGCGG 0.733004 -85 AGTTTGCAAACTCATTCCGCGGTGACTGCGCC 16 161 0 CCATTCGCGG 0.885301 -33 TTTAACGTAACAGCTTTCGCGGGACCGGGGGT 20 135 0 CGCTTTGCGG 0.982031 -82 ACCGCTGCGCCGCGGTTGGTCGATCGGTCGCA 20 181 0 CCGGTTGTCG 0.684348 -36 CATAAAAGCTCCCCTTTTCGGGCAGACCTGGG 22 29 1 CCCTTTCGGG 0.823223 -60 CGGGTCGCCACCCCTTTGGCCGCGAATGTAAC 24 49 0 CCCTTTGCCG 0.983768 -228 TCGCCGCCGCCCGTTTTGTGGACAATGTCGT 25 10 1 CCGTTTGTGG 0.892948 -274 CACCGCGGCCCGCCTTTCCGGGATCCGCAACA 25 134 1 CCCTTTCGGG 0.822127 -150 CGCCAGGGCCCGGCTTCAGCCGATGCCGGGCG 25 233 1 CGCTTCGCCG 0.917347 -51 TTTCGGCAGCCGGCGTCGGCCGTCCGGCCACC 26 46 1 CGCGTCGCCG 0.868998 -39 * ***** **** Masking position 1 Map Score: 9.5708 Number of sites scoring better than the average of aligned sites = 2939 Number in coding regions = 2700 Number in noncoding regions = 239 Number of orfs with sites within 600 bp upstream = 217 Fraction of orfs with sites within 600 bp upstream = 0.0348538 Motif number 15 CGCTCATCCTGTGCTCCCTCTGGTTCTCGT 3 21 0 GTGCTCCCTC 0.888255 -22 ATGCGTCGGCGTACACGGTCAATATGCACC 12 51 0 GTACACGGTC 0.935655 -162 CGACGTGTATGTGCAACGTCTAGTATCAGT 12 93 1 GTGCAACGTC 0.921517 -120 TGTGTTTGAGTTGCACGCTCACCGACACCC 20 29 1 TTGCACGCTC 0.78215 -188 CAGCTCACTGGTGCACCATCCGGGTGTCGG 20 50 0 GTGCACCATC 0.942085 -167 GCCGAGTAGTTTACACCGACCCAGCTGGTG 25 69 0 TTACACCGAC 0.774852 -215 AGTGCTGAGTATACCGACCTGTTTACAA 27 9 1 GTATACCGAC 0.774852 -84 CCCTTAGCGCGTGTACCGTCAAAGCACAAA 27 42 1 GTGTACCGTC 0.96008 -51 ********** Masking position 2 Map Score: 0.33511 Number of sites scoring better than the average of aligned sites = 1453 Number in coding regions = 1345 Number in noncoding regions = 108 Number of orfs with sites within 600 bp upstream = 103 Fraction of orfs with sites within 600 bp upstream = 0.0165435