AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/alignace/lib/ORF_mtub.txt -z/skink1/amcguire/genomes/mtub.fna -ifruR_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 fba 95 fba #2 Rv0466 151 hypothetical protein Rv0466 #3 aceA 274 aceA #4 ppdK 212 ppdK #5 Rv1128c 101 hypothetical protein Rv1128c #6 gap 300 gap #7 Rv1615 300 hypothetical protein Rv1615 #8 pykA 107 pykA #9 pfkA 95 pfkA #10 gatC 84 gatC Motif number 1 CCGGCCATCACGCACAGGCCGACAAGCTCGG 1 25 1 CGCACAGGCG 0.93918 -71 CCAACCGAGCGTACCGGGTGTTGTGAAGAC 2 10 1 CGTACCGGGG 0.936996 -142 ATCATGCCAACGCCGTGGCGGAAACACCAAT 2 71 0 CGCCGTGGCG 0.883478 -81 TGGCATGATTCGCACCGGGACTCAAGGGTGA 2 93 1 CGCACCGGGC 0.94708 -59 TCCCCATTTCCTCCTCGCGTGTACCTCAGGC 2 124 0 CTCCTCGCGG 0.660349 -28 CCGGATCCGCAGGACGTCGATC 3 2 1 CGGATCCGCG 0.719851 -273 GTTTCAGAAGCTACCCGCCAGTAACGACAAA 3 51 0 CTACCCGCCG 0.573594 -224 ACTCGACCATGGCACAGCGTGTCAACGCTGG 3 162 0 GGCACAGCGG 0.882599 -113 CTGCGCCGTTGACACCGCCTGGACGACGGTA 3 209 1 GACACCGCCG 0.969899 -66 CGTTAGGCGGGGGAGCCGGTCGAACCAAG 4 9 1 GGGGGAGCCG 0.787913 -204 GCGTGGACAGCGCACCGGCCCAACGGCTTGG 4 35 0 CGCACCGGCC 0.959824 -178 GTGCGCTGTCCACGCCGCCAGCCACCATCAC 4 51 1 CACGCCGCCG 0.648118 -162 CACCATCACCGGCAGCCGGCGTTGTCTCGCA 4 73 1 GGCAGCCGGG 0.968689 -140 GGGCGCCTTGGTCAGCGGTCGGACTACTCAG 4 134 0 GTCAGCGGTG 0.898241 -79 CGCTGACCAAGGCGCCCCCTGTGGGCCCACA 4 148 1 GGCGCCCCCG 0.952185 -65 CCTGTGGGCCCACAGTGGGCGGTCTGGCGTT 4 165 1 CACAGTGGGG 0.485502 -48 GCTACTTATGGGCAACGCCAGACCGCCCACT 4 178 0 GGCAACGCCG 0.956733 -35 GGGCACCCCTTGATGCTACTTA 4 201 0 GGCACCCCTG 0.789338 -12 TGTCTGCTGTGGCGTCGGGCGG 5 2 0 GGCGTCGGGG 0.951454 -100 AAGCATTGTTGTCGGTGCCTGCACATAGCAT 5 75 1 GTCGGTGCCG 0.756392 -27 TGAGCCCCGCCGCACCGGGCCGTTTCCAAAT 6 71 1 CGCACCGGGC 0.918638 -230 CCAGCGCAATGTCCGCGGTAGGGACGCGGCG 6 127 1 GTCCGCGGTG 0.826928 -174 GCGGTAGGGACGCGGCGGCTGGGATCGGTGG 6 141 1 CGCGGCGGCG 0.962586 -160 GATCGGTGGGGTGAGCGCCCGGCTTCTCAAA 6 163 1 GTGAGCGCCG 0.962195 -138 TCAAAGCGAGGGGAGCCCCGGGACTCTTACC 6 189 1 GGGAGCCCCG 0.931134 -112 CCCCGGGACTCTTACCGGCCGAAGGCGGCGG 6 204 1 CTTACCGGCG 0.906354 -97 ACCGGCCGAAGGCGGCGGGTGTCACTGATCT 6 217 1 GGCGGCGGGG 0.983361 -84 CTGATCTAGGCTGACGGCCAGTGGTTGTTTA 6 241 1 CTGACGGCCG 0.530007 -60 GTGCGGGATTGGAGGCGGGCGTT 7 3 0 GGAGGCGGGG 0.877609 -298 TTCCCGAGTTGGTCGCGGCTGTGCGGGATTG 7 23 0 GGTCGCGGCG 0.922912 -278 CGACAGCTGCCTGACCGGCGGTTTTGTTCCC 7 49 0 CTGACCGGCG 0.98332 -252 GACACCCGATGTGCCCGGCTCTCAGCGACAG 7 74 0 GTGCCCGGCC 0.764285 -227 CACATCGGGTGTCGCCCGGTGCAGTGACACA 7 92 1 GTCGCCCGGG 0.907057 -209 TCGGGCACATCGCACGGCCACAACTCTCACA 7 123 0 CGCACGGCCC 0.525367 -178 CAAATTGGTGCGCACCGAGGGTCGGGCACAT 7 144 0 CGCACCGAGG 0.856326 -157 AAATGAATCTCTGAGCGGAGGTGCACCGGTT 7 187 1 CTGAGCGGAG 0.756238 -114 TTGTGAGGCGGGCAACCGGTGCACCTCCGCT 7 200 0 GGCAACCGGG 0.798532 -101 AGTGTTCGTTGTGCCCGGCTGCGAGCGACCG 7 250 0 GTGCCCGGCG 0.906187 -51 TTCCCAACATCGGCGCGGCAGAGCAGGAGTG 7 277 0 CGGCGCGGCG 0.783413 -24 CCCAGCCAACCAGACCGCGGGTAGGCGCGG 8 10 0 CAGACCGCGG 0.860938 -98 CGGTAGGGCCGGCACCGCCGGGTCGGCACAC 8 63 0 GGCACCGCCG 0.996193 -45 TCAGCATAGTCGCGACGGCGGTAGGGCCGGC 8 81 0 CGCGACGGCG 0.969592 -27 ACGGGCGAGGGGCGCCGGATGCGAGTCTGTG 9 22 0 GGCGCCGGAG 0.968305 -74 CTCGCGCCAGGTCGGCGGCCGCGCGGCAAGA 9 68 1 GTCGGCGGCG 0.957115 -28 CCGGACGGCCGACGCCGGCTGCCGAAACGCC 10 42 0 GACGCCGGCG 0.959357 -43 AGCCTAATGGGTGGCCGGACGGCCGACGCCG 10 56 0 GTGGCCGGAG 0.7946 -29 ********* * Masking position 11 Map Score: 80.8667 Number of sites scoring better than the average of aligned sites = 69322 Number in coding regions = 65162 Number in noncoding regions = 4160 Number of orfs with sites within 600 bp upstream = 1445 Fraction of orfs with sites within 600 bp upstream = 0.232091 Motif number 2 ACCGGCCATCACGCACAGGCCGACAAGCTC 1 24 1 ACGCACAGGC 0.867185 -72 CCACCCAGTATCGCAACACCGCAACCGAGC 1 50 0 TCGCAACACC 0.774786 -46 GTGCGAATCATGCCAACGCCGTGGCGGAAA 2 78 0 TGCCAACGCC 0.854478 -74 TTGGCATGATTCGCACCGGGACTCAAGGGT 2 92 1 TCGCACCGGG 0.936262 -60 CGTGTACCTCAGGCTCACCCTTGAGTCCCG 2 108 0 AGGCTCACCC 0.605546 -44 TTGCGAATTTCGGCAACGGCCTGCGGACTT 3 118 0 CGGCAACGGC 0.929656 -157 AACTCGACCATGGCACAGCGTGTCAACGCT 3 164 0 TGGCACAGCG 0.9392 -111 GCGGTGTCAACGGCGCAGCTTCACTGGTGT 3 197 0 CGGCGCAGCT 0.85123 -78 GCTGCGCCGTTGACACCGCCTGGACGACGG 3 208 1 TGACACCGCC 0.871529 -67 TTGGTTCGACCGGCTCCCCCGCCTAACG 4 9 0 CGGCTCCCCC 0.895215 -204 GGCGTGGACAGCGCACCGGCCCAACGGCTT 4 37 0 GCGCACCGGC 0.98798 -176 GGTGCGCTGTCCACGCCGCCAGCCACCATC 4 50 1 CCACGCCGCC 0.921803 -163 CCATGCTGCGAGACAACGCCGGCTGCCGGT 4 80 0 AGACAACGCC 0.484557 -133 CATGGGTAAGGCCCAACACCAGACACAAGC 4 105 1 GCCCAACACC 0.665045 -108 CCGCTGACCAAGGCGCCCCCTGTGGGCCCA 4 147 1 AGGCGCCCCC 0.933802 -66 TGCTACTTATGGGCAACGCCAGACCGCCCA 4 180 0 GGGCAACGCC 0.984178 -33 GGGCACCCCTTGATGCTACT 4 203 0 GGGCACCCCT 0.912498 -10 CCGCCCGACGCCACAGCAGACA 5 3 1 GCCCGACGCC 0.925824 -99 TGCTATGTGCAGGCACCGACAACAATGCTT 5 75 0 AGGCACCGAC 0.818607 -27 ATGAGCCCCGCCGCACCGGGCCGTTTCCAA 6 70 1 CCGCACCGGG 0.96268 -231 CACCGATCCCAGCCGCCGCGTCCCTACCGC 6 141 0 AGCCGCCGCG 0.877512 -160 GAGAAGCCGGGCGCTCACCCCACCGATCCC 6 161 0 GCGCTCACCC 0.845941 -140 AAGAGTCCCGGGGCTCCCCTCGCTTTGAGA 6 187 0 GGGCTCCCCT 0.616878 -114 GATCAGTGACACCCGCCGCCTTCGGCCGGT 6 217 0 ACCCGCCGCC 0.941092 -84 AACGCCCGCCTCCAATCCCGCAC 7 4 1 GCCCGCCTCC 0.82227 -297 GCCTCCAATCCCGCACAGCCGCGACCAACT 7 18 1 CCGCACAGCC 0.983488 -283 GCTGAGAGCCGGGCACATCGGGTGTCGCCC 7 79 1 GGGCACATCG 0.740799 -222 TCACTGCACCGGGCGACACCCGATGTGCCC 7 89 0 GGGCGACACC 0.903143 -212 GTCGGGCACATCGCACGGCCACAACTCTCA 7 125 0 TCGCACGGCC 0.941796 -176 TCAAATTGGTGCGCACCGAGGGTCGGGCAC 7 146 0 GCGCACCGAG 0.878819 -155 GTTGTGAGGCGGGCAACCGGTGCACCTCCG 7 202 0 GGGCAACCGG 0.770058 -99 ACATGCTGAGGCGCACACGGTCGCTCGCAG 7 233 1 GCGCACACGG 0.818261 -68 GCACACGGTCGCTCGCAGCCGGGCACAACG 7 245 1 GCTCGCAGCC 0.670319 -56 GCTCGCAGCCGGGCACAACGAACACTCCTG 7 255 1 GGGCACAACG 0.844924 -46 ACTCCTGCTCTGCCGCGCCGATGTTGGGAA 7 278 1 TGCCGCGCCG 0.378223 -23 CCGCGCCTACCCGCGGTCTG 8 1 1 CCGCGCCTAC 0.483522 -107 CAACACCACCGCGGGCAGCCCAGCCAACCA 8 29 0 GCGGGCAGCC 0.674339 -79 ACCGCCGGGTCGGCACACCGGTCAACACCA 8 51 0 CGGCACACCG 0.91778 -57 GCGGTAGGGCCGGCACCGCCGGGTCGGCAC 8 65 0 CGGCACCGCC 0.994932 -43 CTCAGCATAGTCGCGACGGCGGTAGGGCCG 8 83 0 TCGCGACGGC 0.884825 -25 GACTCGCATCCGGCGCCCCTCGCCCGTGCG 9 26 1 CGGCGCCCCT 0.845229 -70 AGACACAGAATCGCACGGGCGAGGGGCGCC 9 37 0 TCGCACGGGC 0.828325 -59 CTGTGTCTGCTCGCGCCAGGTCGGCGGCCG 9 59 1 TCGCGCCAGG 0.690133 -37 CCTCATCTTGCCGCGCGGCCGCCGACCTGG 9 74 0 CCGCGCGGCC 0.715243 -22 GCCAACACTGTGGCACAACGATGTATCCAC 10 12 1 TGGCACAACG 0.687227 -73 GTGGCCGGACGGCCGACGCCGGCTGCCGAA 10 47 0 GGCCGACGCC 0.903849 -38 GACCGCAAAGCCTAATGGGTGG 10 73 0 CCGCAAAGCC 0.927428 -12 ********** Masking position 4 Map Score: 70.467 Number of sites scoring better than the average of aligned sites = 63307 Number in coding regions = 59172 Number in noncoding regions = 4135 Number of orfs with sites within 600 bp upstream = 1460 Fraction of orfs with sites within 600 bp upstream = 0.2345 Motif number 3 CCGACAAGCTCGGTTGCGGTGTTGCGATAC 1 43 1 CGGTTGCGGT 0.540711 -53 CTGGGTGGATCGGAGTCGTCAGGAGGAACG 1 72 1 CGGAGTCGTC 0.984049 -24 GTTTCCGCCACGGCGTTGGCATGATTCGCA 2 77 1 CGGCGTTGGC 0.980098 -75 GGTTTACCTGCGGATTTGTCGTTACTGGCG 3 37 1 CGGATTTGTC 0.848641 -238 AGGGCGTCAGCGTTTTCGGCAATGAAAGAC 3 239 1 CGTTTTCGGC 0.738056 -36 AAGACCGTTAAGGAGTTGTCT 3 264 1 AGGAGTTGTC 0.73304 -11 CACCGGCAGCCGGCGTTGTCTCGCAGCATG 4 79 1 CGGCGTTGTC 0.965717 -134 CAGACACAAGCTGAGTAGTCCGACCGCTGA 4 124 1 CTGAGTAGTC 0.649065 -89 TCGTTGTCTGCTGTGGCGTCGGGCGG 5 7 0 CTGTGGCGTC 0.947658 -95 CCTTATATTACTGTGGTTTCAGCAGGCTCT 5 41 1 CTGTGGTTTC 0.546835 -61 TCTGGGCAAGCATTGTTGTCGGTGCCTGCA 5 68 1 CATTGTTGTC 0.522601 -34 TCTTACCGGCCGAAGGCGGCGGGTGTCACT 6 213 1 CGAAGGCGGC 0.65288 -88 TTGTTGTCATCCTTGTTGGCTAAACAACCA 6 262 0 CCTTGTTGGC 0.811744 -39 TCCTCGGCTTATTTGTTGTCATCCTTGTTG 6 274 0 ATTTGTTGTC 0.193825 -27 GGTTTTGTTCCCGAGTTGGTCGCGGCTGTG 7 31 0 CCGAGTTGGT 0.7195 -270 GCCTGACCGGCGGTTTTGTTCCCGAGTTGG 7 42 0 CGGTTTTGTT 0.528195 -259 GATTCATTTCCTGAGTTGGCTCAAATTGGT 7 166 0 CTGAGTTGGC 0.97046 -135 GGGCTGCCCGCGGTGGTGTTGACCGGTGTG 8 38 1 CGGTGGTGTT 0.797493 -70 GCCGGCACCGCCGGGTCGGCACACCGGTCA 8 57 0 CCGGGTCGGC 0.868324 -51 GCCGACCCGGCGGTGCCGGCCCTACCGCCG 8 67 1 CGGTGCCGGC 0.945561 -41 CGCGACTATGCTGAGTCGTC 8 98 1 CTGAGTCGTC 0.962654 -10 GGATGCGAGTCTGTGTCTGCTCGCCG 9 7 0 CTGTGTCTGC 0.8684 -89 CCGTGCGATTCTGTGTCTGCTCGCGCCAGG 9 49 1 CTGTGTCTGC 0.8684 -47 CGTTGTGCCACAGTGTTGGCC 10 2 0 CAGTGTTGGC 0.936008 -83 TTTCGGCAGCCGGCGTCGGCCGTCCGGCCA 10 46 1 CGGCGTCGGC 0.985412 -39 ********** Masking position 1 Map Score: 30.2284 Number of sites scoring better than the average of aligned sites = 27756 Number in coding regions = 26347 Number in noncoding regions = 1409 Number of orfs with sites within 600 bp upstream = 859 Fraction of orfs with sites within 600 bp upstream = 0.13797 Motif number 4 AACACCAATCGCAGCACGCTTGCTAACTCT 2 50 0 GCAGCACGCT 0.824814 -102 CCGGATCCGCAGGACGTCGATCCGT 3 6 1 TCCGCAGGAC 0.413795 -269 CGTTTCAGAAGCTACCCGCCAGTAACGACA 3 53 0 GCTACCCGCC 0.788574 -222 TTGCAAAAAGTCCGCAGGCCGTTGCCGAAA 3 111 1 TCCGCAGGCC 0.958373 -164 CAGCGCACCGGCCCAACGGCTTGGTTCGAC 4 29 0 GCCCAACGGC 0.360096 -184 CGCTGTCCACGCCGCCAGCCACCATCACCG 4 54 1 GCCGCCAGCC 0.928987 -159 ACCATCACCGGCAGCCGGCGTTGTCTCGCA 4 74 1 GCAGCCGGCG 0.90767 -139 CATGGGTAAGGCCCAACACCAGACACAAGC 4 105 1 GCCCAACACC 0.454523 -108 GAGTAGTCCGACCGCTGACCAAGGCGCCCC 4 136 1 ACCGCTGACC 0.616 -77 GCAACGCCAGACCGCCCACTGTGGGCCCAC 4 168 0 ACCGCCCACT 0.584524 -45 CCGCCCGACGCCACAGCAGACA 5 3 1 GCCCGACGCC 0.848109 -99 TACTGTGGTTTCAGCAGGCTCTGGGCAAGC 5 49 1 TCAGCAGGCT 0.537008 -53 GAGCCCCGCCGCACCGGGCCGTTTCCAAAT 6 72 1 GCACCGGGCC 0.725819 -229 AGCCGGGCGCTCACCCCACCGATCCCAGCC 6 157 0 TCACCCCACC 0.812925 -144 GGTGGGGTGAGCGCCCGGCTTCTCAAAGCG 6 167 1 GCGCCCGGCT 0.685191 -134 GTCCCGGGGCTCCCCTCGCTTTGAGAAGCC 6 183 0 TCCCCTCGCT 0.648864 -118 GATCAGTGACACCCGCCGCCTTCGGCCGGT 6 217 0 ACCCGCCGCC 0.727924 -84 ACTGATCTAGGCTGACGGCCAGTGGTTGTT 6 240 1 GCTGACGGCC 0.829529 -61 TTGTCTCTCCTCGGCTTATTTGTTG 6 286 0 TCTCCTCGGC 0.399314 -15 AACGCCCGCCTCCAATCCCG 7 1 1 AACGCCCGCC 0.565228 -300 AGGTGCACCGGTTGCCCGCCTCACAACGAC 7 205 1 GTTGCCCGCC 0.727088 -96 ACGGTCGCTCGCAGCCGGGCACAACGAACA 7 249 1 GCAGCCGGGC 0.917896 -52 ACCACCGCGGGCAGCCCAGCCAACCAGACC 8 25 0 GCAGCCCAGC 0.788446 -83 CACCGCCGGGTCGGCACACCGGTCAACACC 8 52 0 TCGGCACACC 0.538031 -56 CCGACCCGGCGGTGCCGGCCCTACCGCCGT 8 68 1 GGTGCCGGCC 0.717194 -40 CGAGTCTGTGTCTGCTCGCCG 9 2 0 TCTGCTCGCC 0.891726 -94 CGCATCCGGCGCCCCTCGCCCGTGCGATTC 9 30 1 GCCCCTCGCC 0.96522 -66 CGATTCTGTGTCTGCTCGCGCCAGGTCGGC 9 54 1 TCTGCTCGCG 0.531208 -42 TTGCCGCGCGGCCGCCGACCTGGCGCGAGC 9 67 0 GCCGCCGACC 0.974751 -29 CGGCGTTTCGGCAGCCGGCGTCGGCCGTCC 10 41 1 GCAGCCGGCG 0.90767 -44 GCGTCGGCCGTCCGGCCACCCATTAGGCTT 10 58 1 TCCGGCCACC 0.751842 -27 ********** Masking position 2 Map Score: 32.8003 Number of sites scoring better than the average of aligned sites = 43610 Number in coding regions = 40595 Number in noncoding regions = 3015 Number of orfs with sites within 600 bp upstream = 1319 Fraction of orfs with sites within 600 bp upstream = 0.211854 Motif number 5 ACCGAGCTTGTCGGCCTGTGCGTGATGGCCGG 1 25 0 TCGCCTTGCG 0.861585 -71 CAGCACGCTTGCTAACTCTGCGAATGGCGTCT 2 37 0 GCAACTTGCG 0.949898 -115 CGGACTTTTTGCAAATTTTGCGAAGTCGCCCA 3 93 0 GCAATTTGCG 0.835032 -182 AACGCCGGCTGCCGGTGATGGTGGCTGGCGGC 4 64 0 GCGGTGTGGT 0.643631 -149 TCAGCTTGTGTCTGGTGTTGGGCCTTACCCAT 4 106 0 TCGGTGTGGG 0.629769 -107 TGACCAAGGCGCCCCCTGTGGGCCCACAGTGG 4 151 1 GCCCCTTGGG 0.977187 -62 ACGCCAGACCGCCCACTGTGGGCCCACAGGGG 4 163 0 GCCACTTGGG 0.968103 -50 ACCCCTTGATGCTACTTATGGGCAACGCCAGA 4 187 0 GCACTTTGGG 0.898894 -26 TGTGGTTTCAGCAGGCTCTGGGCAAGCATTGT 5 52 1 GCGGCTTGGG 0.982078 -50 TCAATTGTCAGCATCCTATGGGGAACATGAGC 6 44 1 GCTCCTTGGG 0.891485 -257 CGTCCCTACCGCGGACATTGCGCTGGCTTGTG 6 121 0 GCGACATGCG 0.937036 -180 CGGTAGGGACGCGGCGGCTGGGATCGGTGGGG 6 142 1 GCGCGGTGGG 0.959755 -159 TGTGAGGCGGGCAACCGGTGCACCTCCGCTCA 7 198 0 GCACCGTGCA 0.652019 -103 GCTCTGCCGCGCCGATGTTGGGAACGC 7 284 1 GCGATGTGGG 0.961678 -17 TGGCTGGGCTGCCCGCGGTGGTGTTGACCGGT 8 33 1 GCCGCGTGGT 0.754211 -75 TGACCGGTGTGCCGACCCGGCGGTGCCGGCCC 8 57 1 GCGACCGGCG 0.826141 -51 CGGGCGAGGGGCGCCGGATGCGAGTCTGTGTC 9 20 0 GCCCGGTGCG 0.89732 -76 CCGCGCGGCCGCCGACCTGGCGCGAGCAGACA 9 62 0 GCGACCGGCG 0.826141 -34 GGCCAACACTGTGGCACAACGAT 10 2 1 GCAACATGTG 0.340657 -83 ** **** **** Masking position 10 Map Score: 20.7983 Number of sites scoring better than the average of aligned sites = 10149 Number in coding regions = 9446 Number in noncoding regions = 703 Number of orfs with sites within 600 bp upstream = 557 Fraction of orfs with sites within 600 bp upstream = 0.0894635 Motif number 6 CCAACATACCGGCCATCACGCACAGGCCGA 1 17 1 GGCCATCACG 0.923591 -79 ATCACGCACAGGCCGACAAGCTCGGTTGCG 1 31 1 GGCCGACAAG 0.862404 -65 GACGACTCCGATCCACCCAGTATCGCAACA 1 62 0 ATCCACCCAG 0.882019 -34 GTCAACGCTGGTCCACCCATTTCACTTGCG 3 143 0 GTCCACCCAT 0.93876 -132 CCGGTGCGCTGTCCACGCCGCCAGCCACCA 4 48 1 GTCCACGCCG 0.841455 -165 GGGCACCCCTTGATGCTACT 4 203 0 GGGCACCCCT 0.952434 -10 GTGGTTGTTTAGCCAACAAGGATGACAACA 6 261 1 AGCCAACAAG 0.88962 -40 CACATCGCACGGCCACAACTCTCACATGTG 7 119 0 GGCCACAACT 0.768711 -182 GTTGTGAGGCGGGCAACCGGTGCACCTCCG 7 202 0 GGGCAACCGG 0.842121 -99 CGGGCAGCCCAGCCAACCAGACCGCGGGTA 8 18 0 AGCCAACCAG 0.946825 -90 GGCCAACACTGTGGCACAAC 10 1 1 GGCCAACACT 0.956855 -84 TCGGCCGTCCGGCCACCCATTAGGCTTTGC 10 61 1 GGCCACCCAT 0.985804 -24 ********** Masking position 4 Map Score: 10.2131 Number of sites scoring better than the average of aligned sites = 8934 Number in coding regions = 8446 Number in noncoding regions = 488 Number of orfs with sites within 600 bp upstream = 388 Fraction of orfs with sites within 600 bp upstream = 0.0623193 Motif number 7 AGGCCGACAAGCTCGGTTGCGGTGTTGCGA 1 40 1 GCTCGGTTGC 0.766599 -56 CACCCGGTACGCTCGGTTGG 2 1 0 GCTCGGTTGG 0.902757 -151 AATCATGCCAACGCCGTGGCGGAAACACCA 2 73 0 ACGCCGTGGC 0.944959 -79 TGAGGTACACGCGAGGAGGAAATGGGGAGA 2 127 1 GCGAGGAGGA 0.657755 -25 GCAGGACGTCGATCCGTGGGTTTACCTGCG 3 19 1 GATCCGTGGG 0.943765 -256 CAGTGAAGCTGCGCCGTTGACACCGCCTGG 3 201 1 GCGCCGTTGA 0.976028 -74 CGGTCGAACCAAGCCGTTGGGCCGGTGCGC 4 27 1 AAGCCGTTGG 0.852946 -186 ATGGTGGCTGGCGGCGTGGACAGCGCACCG 4 49 0 GCGGCGTGGA 0.902244 -164 CCCACAGGGGGCGCCTTGGTCAGCGGTCGG 4 143 0 GCGCCTTGGT 0.825855 -70 GCTGACAATTGAGCCGATGGTCGAAAAGGA 6 26 0 GAGCCGATGG 0.937237 -275 CGGCGGCTGGGATCGGTGGGGTGAGCGCCC 6 153 1 GATCGGTGGG 0.902758 -148 GACAACAAATAAGCCGAGGAGAGACAA 6 284 1 AAGCCGAGGA 0.831163 -17 AAATTGGTGCGCACCGAGGGTCGGGCACAT 7 144 0 GCACCGAGGG 0.891695 -157 ATGAATCTCTGAGCGGAGGTGCACCGGTTG 7 189 1 GAGCGGAGGT 0.910713 -112 CTGCTCTGCCGCGCCGATGTTGGGAACGC 7 282 1 GCGCCGATGT 0.94855 -19 GCTGGGCTGCCCGCGGTGGTGTTGACCGGT 8 35 1 CCGCGGTGGT 0.837766 -73 GGCTGCCGAAACGCCGTGGATACATCGTTG 10 27 0 ACGCCGTGGA 0.962307 -58 ********** Masking position 9 Map Score: 23.6291 Number of sites scoring better than the average of aligned sites = 13111 Number in coding regions = 12236 Number in noncoding regions = 875 Number of orfs with sites within 600 bp upstream = 633 Fraction of orfs with sites within 600 bp upstream = 0.10167 Motif number 8 TGGGTGGATCGGAGTCGTCAGGAGGAACGT 1 73 1 GGAGTCGTCA 0.976224 -23 CTCTGCGAATGGCGTCTTCACAACACCCGG 2 24 0 GGCGTCTTCA 0.973006 -128 TTTCCGCCACGGCGTTGGCATGATTCGCAC 2 78 1 GGCGTTGGCA 0.951042 -74 GTTTACCTGCGGATTTGTCGTTACTGGCGG 3 38 1 GGATTTGTCG 0.746583 -237 TCAGTTTTTGGGCGACTTCGCAAAATTTGC 3 85 1 GGCGACTTCG 0.906451 -190 CCGTCGTCCAGGCGGTGTCAACGGCGCAGC 3 208 0 GGCGGTGTCA 0.955579 -67 GTAGGGCGTCAGCGTTTTCGGCAATGAAAG 3 237 1 AGCGTTTTCG 0.721165 -38 AGACCGTTAAGGAGTTGTCT 3 265 1 GGAGTTGTCT 0.932768 -10 GGTGGCTGGCGGCGTGGACAGCGCACCGGC 4 47 0 GGCGTGGACA 0.881261 -166 ACCGGCAGCCGGCGTTGTCTCGCAGCATGG 4 80 1 GGCGTTGTCT 0.974202 -133 GTTTCCAAATGGTGACGTCACAACGGTGTC 6 92 1 GGTGACGTCA 0.755887 -209 CGGCAGAGCAGGAGTGTTCGTTGTGCCCGG 7 263 0 GGAGTGTTCG 0.882342 -38 ********** Masking position 9 Map Score: 10.6799 Number of sites scoring better than the average of aligned sites = 6296 Number in coding regions = 5962 Number in noncoding regions = 334 Number of orfs with sites within 600 bp upstream = 281 Fraction of orfs with sites within 600 bp upstream = 0.0451333 Motif number 9 ********** No masking Map Score: -1.2126e-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: -1.2126e-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: -1.2126e-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