AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00120_mtub_reg_100.orf -o00120_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 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 adhB 98 adhB #8 Rv0767c 201 hypothetical protein Rv0767c #9 fadA3 52 fadA3 #10 Rv1075c 300 hypothetical protein Rv1075c #11 Rv1861 300 hypothetical protein Rv1861 #12 adhA 73 adhA #13 adhE2 300 adhE2 #14 ltp1 32 ltp1 #15 Rv2792c 201 hypothetical protein Rv2792c #16 Rv3137 300 hypothetical protein Rv3137 #17 fadE24 79 fadE24 #18 Rv3292 30 hypothetical protein Rv3292 #19 aldB 26 aldB #20 Rv3545c_fadA5 111 Rv3545c: hypothetical protein Rv3545c, fadA5: fadA5 Motif number 1 CTATCCGACGATCAGCAGCGCAACCATGGCCCAG 1 28 1 ATCGCAGCGC 0.987816 -74 TGGCACATCACTACGCTTCGGGGCCGCCGGTTAG 2 18 0 CTAGCTTCGC 0.94292 -71 CATCGCTGCGCTCGGCATCGTCGCCGGCGGTCAT 5 59 0 CTCGCATCGC 0.998852 -40 TGCGCCGCTCCTCCTCATCGCTGCGCTCGGCATC 5 74 0 CTCTCATCGC 0.998944 -25 TTCTCCGACTCTCATCATCGATTGGACACTTGTC 8 25 1 CTCTCATCGG 0.97812 -177 TGTCCGATATTGCCTCATCGAGACCGTATCCGCA 8 55 1 TGCTCATCGC 0.884328 -147 CCAGAGGCTCAGCCGCTTCGTCACATGCTGTATC 10 118 0 AGCGCTTCGC 0.889622 -183 CGCTTTTCTGCTGTTCAGCGGTGCTTTCAGGTGG 11 130 0 CTGTCAGCGC 0.996796 -171 ATCGGTATACCGCTTCTGCGTAACGATTTGAGGG 11 230 0 CGCTCTGCGC 0.989873 -71 ACTCATCTGCGCCGCTCCTCCTCAT 13 2 1 CTCTCTGCGC 0.997721 -299 TGCGCCGCTCCTCCTCATCGCTTCGCTCTGCATC 13 18 1 CTCTCATCGC 0.998944 -283 CATCGCTTCGCTCTGCATCGTCACCGGCGCGACT 13 33 1 CTCGCATCGC 0.998852 -268 ACCGGCGCGACTCATCTGCGCCGCTCCTGCTCAT 13 55 1 CTCTCTGCGC 0.997721 -246 TGCGCCGCTCCTGCTCATCGCTTCGCTCTGCATC 13 71 1 CTGTCATCGC 0.996735 -230 CATCGCTTCGCTCTGCATCGTCACCGGCGCGACT 13 86 1 CTCGCATCGC 0.998852 -215 ACCGGCGCGACTCATCTGCGCCGCTCCTGCTCAT 13 108 1 CTCTCTGCGC 0.997721 -193 TGCGCCGCTCCTGCTCATCGCTTCGCTCTGCATC 13 124 1 CTGTCATCGC 0.996735 -177 CATCGCTTCGCTCTGCATCGTCACCGGCGCGACT 13 139 1 CTCGCATCGC 0.998852 -162 ACCGGCGCGACTCATCTGCGCCGCTCCTGCTCAT 13 161 1 CTCTCTGCGC 0.997721 -140 TGCGCCGCTCCTGCTCATCGCTTCGCTCTGCATC 13 177 1 CTGTCATCGC 0.996735 -124 CATCGCTTCGCTCTGCATCGTCACCGGCGCGACT 13 192 1 CTCGCATCGC 0.998852 -109 ACCGGCGCGACTCATCTGCGCCGCTCCTCCTCAT 13 214 1 CTCTCTGCGC 0.997721 -87 TGCGCCGCTCCTCCTCATCGCTTCGCTCTGCATC 13 230 1 CTCTCATCGC 0.998944 -71 CATCGCTTCGCTCTGCATCGTCACCGGCGCGCAT 13 245 1 CTCGCATCGC 0.998852 -56 ACCGGCGCGCATGGTCAGCGACGCTACACCGTAG 13 267 1 ATGTCAGCGC 0.96604 -34 GCGGGGAGATCTGGCCAGCGGCACGCTCCTGGTG 16 79 0 CTGCCAGCGC 0.973712 -222 *** ****** * Masking position 6 Map Score: 98.6641 Number of sites scoring better than the average of aligned sites = 717 Number in coding regions = 568 Number in noncoding regions = 149 Number of orfs with sites within 600 bp upstream = 102 Fraction of orfs with sites within 600 bp upstream = 0.0163829 Motif number 2 CCCAGAGTTGGCCAGCGCTATCCGACGA 1 9 1 TGGCCAGCGC 0.438053 -93 GGGCCATGGTTGCGCTGCTGATCGTCGGAT 1 30 0 TGCGCTGCTG 0.869285 -72 CACATCACTACGCTTCGGGGCCGCCGGTTA 2 19 0 CGCTTCGGGG 0.945209 -70 TCCTCCTCATCGCTGCGCTCGGCATCGTCG 5 70 0 CGCTGCGCTC 0.917584 -29 ATGCGCCGCTCCTCCTCATCG 5 88 0 TGCGCCGCTC 0.995495 -11 GCACACCCTACGGCCCGCTAGGCTATCGAC 6 13 0 CGGCCCGCTA 0.947247 -23 GGGGCCACGTCGCGTCGCGGACAGTCCCAT 8 120 1 CGCGTCGCGG 0.992846 -82 TTCAACACGTCGCGCGGCGAAATGACAACT 10 24 1 CGCGCGGCGA 0.970371 -277 CTCCATAGGTCGCGCCGGGGACGGGCAGCG 11 47 1 CGCGCCGGGG 0.995981 -254 GCGCCGGGGACGGGCAGCGGGTCGTGTGCG 11 58 1 CGGGCAGCGG 0.912912 -243 ACGTGTGTGGCGCCCCACGGTGTTTTCGTG 11 166 0 CGCCCCACGG 0.887572 -135 GTGACTGCGGCGGCCGGCGACGGTAGCGGC 12 43 1 CGGCCGGCGA 0.750551 -31 ACTCATCTGCGCCGCTCCTCCTCATCG 13 8 1 TGCGCCGCTC 0.995495 -293 TCCTCCTCATCGCTTCGCTCTGCATCGTCA 13 26 1 CGCTTCGCTC 0.981613 -275 GCAGATGAGTCGCGCCGGTGACGATGCAGA 13 44 0 CGCGCCGGTG 0.99671 -257 GCGACTCATCTGCGCCGCTCCTGCTCATCG 13 61 1 TGCGCCGCTC 0.995495 -240 TCCTGCTCATCGCTTCGCTCTGCATCGTCA 13 79 1 CGCTTCGCTC 0.981613 -222 GCAGATGAGTCGCGCCGGTGACGATGCAGA 13 97 0 CGCGCCGGTG 0.99671 -204 GCGACTCATCTGCGCCGCTCCTGCTCATCG 13 114 1 TGCGCCGCTC 0.995495 -187 TCCTGCTCATCGCTTCGCTCTGCATCGTCA 13 132 1 CGCTTCGCTC 0.981613 -169 GCAGATGAGTCGCGCCGGTGACGATGCAGA 13 150 0 CGCGCCGGTG 0.99671 -151 GCGACTCATCTGCGCCGCTCCTGCTCATCG 13 167 1 TGCGCCGCTC 0.995495 -134 TCCTGCTCATCGCTTCGCTCTGCATCGTCA 13 185 1 CGCTTCGCTC 0.981613 -116 GCAGATGAGTCGCGCCGGTGACGATGCAGA 13 203 0 CGCGCCGGTG 0.99671 -98 GCGACTCATCTGCGCCGCTCCTCCTCATCG 13 220 1 TGCGCCGCTC 0.995495 -81 TCCTCCTCATCGCTTCGCTCTGCATCGTCA 13 238 1 CGCTTCGCTC 0.981613 -63 GCTGACCATGCGCGCCGGTGACGATGCAGA 13 256 0 CGCGCCGGTG 0.99671 -45 CCTACGGTGTAGCGTCGCTGACCATGCGCG 13 272 0 AGCGTCGCTG 0.838758 -29 CCAACCGAATCGCCCGGCTCCTCCTCACCC 15 13 0 CGCCCGGCTC 0.978694 -189 TAGGGGGATGCGGTCCGGGACGGCAACGGT 15 58 1 CGGTCCGGGA 0.862084 -144 CGCACGGCGATGGGCCGCTGTTCAATTCGG 15 114 1 TGGGCCGCTG 0.987457 -88 TCACCAGGAGCGTGCCGCTGGCCAGATCTC 16 78 1 CGTGCCGCTG 0.9598 -223 GATCTCCCCGCGGGCCGCGCGGGATAAGCC 16 102 1 CGGGCCGCGC 0.994963 -199 CGGTATTTCTTGCTCCGCGGCTTATCCCGC 16 120 0 TGCTCCGCGG 0.986455 -181 AGTCCTACCATGGCCGGGTGGGATGGGAGT 16 183 0 TGGCCGGGTG 0.621664 -118 ACTGAGTTCACGCTCGGCGTAATAACGGCT 16 222 0 CGCTCGGCGT 0.707684 -79 ACTGGGTACACGCTCGGCGAAAGGATGGTG 16 276 1 CGCTCGGCGA 0.921016 -25 TAAGATAGGGTGGTCCGCTATCACCCCGAT 17 45 1 TGGTCCGCTA 0.863134 -35 GGGCTCGTAACGCGTCAGTGGTTA 19 5 0 CGCGTCAGTG 0.692781 -22 ********** Masking position 2 Map Score: 104.047 Number of sites scoring better than the average of aligned sites = 14196 Number in coding regions = 12997 Number in noncoding regions = 1199 Number of orfs with sites within 600 bp upstream = 726 Fraction of orfs with sites within 600 bp upstream = 0.116608 Motif number 3 GCGCTATCCGACGATCAGCAGCGCAACCATGGC 1 25 1 AGTCACAGCG 0.856861 -77 CTGGACGTACGCGATCACCGCCGCTGTGCGGCG 1 64 1 GGTCACGCCG 0.989814 -38 CCGAGACCTAACCGGCGGCCCCGAAGC 2 5 1 GCTAACGGCG 0.970897 -84 GTAGGGTGACGCCATGACCGCCGGCGACGATGC 5 46 1 GCTGACGCCG 0.989241 -53 CGCAGCGATGAGGAGGAGCGGCGCAT 5 83 1 AGGGACGGCG 0.992382 -16 TGGCTGAGTGTAGGTCAACGGCGCTAGGGCGT 7 10 0 TGTCACGGCG 0.941417 -89 CCCTAGCCTCGGCCGGAACGCCGACTGGCTGAG 7 35 0 GCGGACGCCG 0.992128 -64 TCGAGACCGTATCCGCAAGGCCGCTACACCGTC 8 72 1 ACGCAGGCCG 0.918661 -130 TGCTGTATCGGACTACAACGGCGTAGGAAGTGT 10 94 0 GCACACGGCG 0.974058 -207 TCAGTGCACCGTGCGAAACGCCGACACCGTTGA 11 94 1 GGGAACGCCG 0.920986 -207 CTTTCAGGTGGAGTTCAACGGTGTCGGCGTTTC 11 108 0 GGTCACGGTG 0.92566 -193 CGAAGCGATGAGGAGGAGCGGCGCAGATGAGT 13 10 0 AGGGACGGCG 0.992382 -291 TTCGCTCTGCATCGTCACCGGCGCGACTCATCT 13 39 1 ACTCACGGCG 0.997162 -262 CGAAGCGATGAGCAGGAGCGGCGCAGATGAGTC 13 63 0 ACGGACGGCG 0.995908 -238 TTCGCTCTGCATCGTCACCGGCGCGACTCATCT 13 92 1 ACTCACGGCG 0.997162 -209 CGAAGCGATGAGCAGGAGCGGCGCAGATGAGTC 13 116 0 ACGGACGGCG 0.995908 -185 TTCGCTCTGCATCGTCACCGGCGCGACTCATCT 13 145 1 ACTCACGGCG 0.997162 -156 CGAAGCGATGAGCAGGAGCGGCGCAGATGAGTC 13 169 0 ACGGACGGCG 0.995908 -132 TTCGCTCTGCATCGTCACCGGCGCGACTCATCT 13 198 1 ACTCACGGCG 0.997162 -103 CGAAGCGATGAGGAGGAGCGGCGCAGATGAGTC 13 222 0 AGGGACGGCG 0.992382 -79 TTCGCTCTGCATCGTCACCGGCGCGCATGGTCA 13 251 1 ACTCACGGCG 0.997162 -50 ACCGGCGCGCATGGTCAGCGACGCTACACCGTA 13 267 1 AGTCACGACG 0.897668 -34 TGCGGTCCGGGACGGCAACGGTGGCACACTGGG 15 66 1 GCGCACGGTG 0.969649 -136 CCAGCAGTATGTCACCATCGCCGGGATCATCAC 16 14 0 GCCCACGCCG 0.963654 -287 AGACTATCGCAACGGCAGTGCCGC 18 17 1 ACGCATGCCG 0.883995 -14 AGTAAAACATGCCTTCACCGCAGACAAAAGGCA 20 62 0 GCTCACGCAG 0.862882 -50 * * *** ***** Masking position 7 Map Score: 77.4956 Number of sites scoring better than the average of aligned sites = 10000 Number in coding regions = 9571 Number in noncoding regions = 429 Number of orfs with sites within 600 bp upstream = 326 Fraction of orfs with sites within 600 bp upstream = 0.0523611 Motif number 4 CTCCTCGCCGCACAGCGGCGGTGATCGCGT 1 72 0 CACAGCGGCG 0.926647 -30 CGCCATGACCGCCGGCGACGATGCCGAGCG 5 55 1 GCCGGCGACG 0.99353 -44 GGCGACGATGCCGAGCGCAGCGATGAGGAG 5 68 1 CCGAGCGCAG 0.954916 -31 ACGCCCTAGCGCCGTTGACCTACA 7 5 1 CCTAGCGCCG 0.829346 -94 TAGCCTCGGCCGGAACGCCGACTGGCTGAG 7 35 0 CGGAACGCCG 0.229893 -64 CTTGTCCATGCCGGGAGCCGTC 9 41 1 CCGGGAGCCG 0.848179 -12 TGTCATTTCGCCGCGCGACGTGTTGAAGGC 10 21 0 CCGCGCGACG 0.954822 -280 CATAGGTCGCGCCGGGGACGGGCAGCGGGT 11 50 1 GCCGGGGACG 0.943363 -251 GCGCGTCTTTCAGTGCACCGTGCGAAACGC 11 85 1 CAGTGCACCG 0.445577 -216 CACGAAAACACCGTGGGGCGCCACACACGT 11 166 1 CCGTGGGGCG 0.594333 -135 GCTGGCTTAGCCCAGCACAGGGCCGTGATA 11 263 0 CCCAGCACAG 0.647495 -38 AATTGAGTGTGACTGCGGCGGCCGGCGACG 12 35 1 GACTGCGGCG 0.75844 -39 GACTGCGGCGGCCGGCGACGGTAGCGGCAT 12 45 1 GCCGGCGACG 0.99353 -29 GGTGACGATGCAGAGCGAAGCGATGAGGAG 13 28 0 CAGAGCGAAG 0.916554 -273 GATGAGTCGCGCCGGTGACGATGCAGAGCG 13 41 0 GCCGGTGACG 0.961169 -260 GGTGACGATGCAGAGCGAAGCGATGAGCAG 13 81 0 CAGAGCGAAG 0.916554 -220 GATGAGTCGCGCCGGTGACGATGCAGAGCG 13 94 0 GCCGGTGACG 0.961169 -207 GGTGACGATGCAGAGCGAAGCGATGAGCAG 13 134 0 CAGAGCGAAG 0.916554 -167 GATGAGTCGCGCCGGTGACGATGCAGAGCG 13 147 0 GCCGGTGACG 0.961169 -154 GGTGACGATGCAGAGCGAAGCGATGAGCAG 13 187 0 CAGAGCGAAG 0.916554 -114 GATGAGTCGCGCCGGTGACGATGCAGAGCG 13 200 0 GCCGGTGACG 0.961169 -101 GGTGACGATGCAGAGCGAAGCGATGAGGAG 13 240 0 CAGAGCGAAG 0.916554 -61 GACCATGCGCGCCGGTGACGATGCAGAGCG 13 253 0 GCCGGTGACG 0.961169 -48 GGCGCGCATGGTCAGCGACGCTACACCGTA 13 270 1 GTCAGCGACG 0.803095 -31 TGCGGTCCGGGACGGCAACGGTGGCACACT 15 66 1 GACGGCAACG 0.80412 -136 CGGCCCATCGCCGTGCGACGTAGGCCGTGT 15 101 0 CCGTGCGACG 0.979343 -101 CAGTGATGATCCCGGCGATGGTGACATACT 16 12 1 CCCGGCGATG 0.907994 -289 CAGCCCGCGACCGGACGCAGGCGGCCAGCA 16 41 0 CCGGACGCAG 0.668392 -260 ********** Masking position 10 Map Score: 45.7254 Number of sites scoring better than the average of aligned sites = 23283 Number in coding regions = 21867 Number in noncoding regions = 1416 Number of orfs with sites within 600 bp upstream = 838 Fraction of orfs with sites within 600 bp upstream = 0.134597 Motif number 5 CCAGAGTTGGCCAGCGCTATCCGACGATCAGCAG 1 12 1 CCAGCCTCGA 0.76026 -90 CGAGACCTAACCGGCGGCCCCGAAGCGTAGTGAT 2 12 1 CCGGCGCCAA 0.84975 -77 CGAGCGCATCCGACTGACCTTATA 4 1 1 CGAGCCCCAC 0.911932 -94 CTGGCACACCCTACGGCCCGCTAG 6 22 0 CTGGCCCCAC 0.989635 -14 GAGTGGTCCCTAGCCTCGGCCGGAACGCCGACTG 7 41 0 TAGCCCCCGA 0.59422 -58 CTACCGCTCCCAACTTCTCCGACT 8 1 1 CTACCCCCAC 0.975762 -201 CGCAAGGCCGCTACACCGTCCTGACCGATGCACC 8 85 1 CTACACCCGA 0.508341 -117 GGCTTGCCTCCTGCCGCGACCATCCGATAGCTTG 8 173 1 CTGCCCCCTC 0.98455 -29 AGTAAGGTATCCGGCTCACCCAGAGTTGTCATTT 10 43 0 CCGGCCCCGA 0.989941 -258 GCAGTCATGCCCAACACTTCCTACGCCGTTGTAG 10 81 1 CCAACCCCAC 0.906795 -220 GGCTGAGCCTCTGGCTCAGCCAACCCCGCGAACT 10 138 1 CTGGCCCCAC 0.989635 -163 ATCCACGAAATCGGCACAACCGTCCTAAACTGAT 10 262 1 TCGGCCCCTC 0.928873 -39 TACAAGTCGCCAACCACGACCCAC 11 1 0 CAACCCCCAC 0.964909 -300 CTGCCCGTCCCCGGCGCGACCTATGGAGAACCGG 11 41 0 CCGGCCCCAT 0.945574 -260 ACGTTTGATCACGCCACAACCCACCGACACCGTC 11 192 1 ACGCCCCCAC 0.965519 -109 CCCACCGACACCGTCACTACCCTCAAATCGTTAC 11 211 1 CCGTCCCCTC 0.964485 -90 CCGTCGCCGGCCGCCGCAGTCACACTCAATTTGC 12 32 0 CCGCCCTCCA 0.792019 -42 CACTCCATCATGCCGCTACCGTCGCCGGCCGCC 12 51 0 ATGCCCCCTC 0.809809 -23 ACCGAATCGCCCGGCTCCTCCTCACCCCG 15 6 0 CCGGCCCCCA 0.972082 -196 CCGTCCCGGACCGCATCCCCCTACATTGAGGCCA 15 47 0 CCGCACCCAC 0.974565 -155 GCCCAGTGTGCCACCGTTGCCGTCCCGGACCGCA 15 66 0 CCACCTCCTC 0.740478 -136 CAACAGCTGACAGCCCCTTCCGAATTGAACAGCG 15 129 0 CAGCCCCCAA 0.960852 -73 GTGCCGCTGGCCAGATCTCCCCGCGGGCCGCGCG 16 89 1 CCAGACCCGC 0.90975 -212 CGCCAAACTCCCATCCCACCCGGCCATGGTAGGA 16 177 1 CCATCCCCGC 0.938724 -124 ACGGCAGCCTCGGTCATCGGGGTGATAG 17 62 0 CAGCCCTCTC 0.799177 -18 ***** * ** ** Masking position 11 Map Score: 34.6769 Number of sites scoring better than the average of aligned sites = 19523 Number in coding regions = 18564 Number in noncoding regions = 959 Number of orfs with sites within 600 bp upstream = 631 Fraction of orfs with sites within 600 bp upstream = 0.101349 Motif number 6 AGCGGCGGTGATCGCGTACGTCCAGACCTG 1 59 0 ATCGCGTACG 0.493238 -43 GGCGCTCATCCTGTGCTCCCTCTGGTT 3 26 0 ATCCTGTGCT 0.361549 -17 ACGTTCTCGTTTCGCGTTCGGCTTGGGTAG 5 20 1 TTCGCGTTCG 0.529978 -79 GCTCGGCATCGTCGCCGGCGGTCATGGCGT 5 54 0 GTCGCCGGCG 0.991886 -45 GCCGGCGACGATGCCGAGCGCAGCGATGAG 5 65 1 ATGCCGAGCG 0.614122 -34 CGTCTTGTCCATGCCGGGAGCCGTC 9 38 1 ATGCCGGGAG 0.70206 -15 AGTTGTCATTTCGCCGCGCGACGTGTTGAA 10 24 0 TCGCCGCGCG 0.595938 -277 TCAAGCTAAGTTCGCGGGGTTGGCTGAGCC 10 150 0 TTCGCGGGGT 0.43844 -151 TCCTAAACTGATCCCGTGAGCATGCGC 10 284 1 ATCCCGTGAG 0.663799 -17 CCCGCTGCCCGTCCCCGGCGCGACCTATGG 11 49 0 GTCCCCGGCG 0.989522 -252 CGGGCAGCGGGTCGTGTGCGCGTCTTTCAG 11 68 1 GTCGTGTGCG 0.931588 -233 CCACGGTGTTTTCGTGGGCGCTTTTCTGCT 11 152 0 TTCGTGGGCG 0.891563 -149 TCGGTGGGTTGTGGCGTGATCAAACGTGTG 11 189 0 GTGGCGTGAT 0.553304 -112 TCACGGCCCTGTGCTGGGCTAAGCCAGCGT 11 265 1 GTGCTGGGCT 0.718371 -36 TGTGACTGCGGCGGCCGGCGACGGTAGCGG 12 42 1 GCGGCCGGCG 0.952571 -32 GCTCTGCATCGTCACCGGCGCGACTCATCT 13 42 1 GTCACCGGCG 0.96791 -259 GCTCTGCATCGTCACCGGCGCGACTCATCT 13 95 1 GTCACCGGCG 0.96791 -206 GCTCTGCATCGTCACCGGCGCGACTCATCT 13 148 1 GTCACCGGCG 0.96791 -153 GCTCTGCATCGTCACCGGCGCGACTCATCT 13 201 1 GTCACCGGCG 0.96791 -100 GCTCTGCATCGTCACCGGCGCGCATGGTCA 13 254 1 GTCACCGGCG 0.96791 -47 GGGTGAGGAGGAGCCGGGCGATTCGGTTGG 15 13 1 GAGCCGGGCG 0.861276 -189 CAGCGGCCCATCGCCGTGCGACGTAGGCCG 15 104 0 TCGCCGTGCG 0.823582 -98 GTAGTTGTCAGTGGCGTGCTGTAGGAACAA 15 178 1 GTGGCGTGCT 0.936588 -24 CATACTGCTGGCCGCCTGCGTCCGGTCGCG 16 36 1 GCCGCCTGCG 0.945986 -265 CCTGCGTCCGGTCGCGGGCTGACTCCGGTC 16 50 1 GTCGCGGGCT 0.981733 -251 TCCGCGGCTTATCCCGCGCGGCCCGCGGGG 16 107 0 ATCCCGCGCG 0.885035 -194 GGATGGGAGTTTGGCGTGCTACTCATACTG 16 163 0 TTGGCGTGCT 0.813309 -138 AGTGCGATTTTTCGCGTGCGTTCTTGCACT 16 249 0 TTCGCGTGCG 0.97353 -52 ********** Masking position 8 Map Score: 40.9168 Number of sites scoring better than the average of aligned sites = 18581 Number in coding regions = 17340 Number in noncoding regions = 1241 Number of orfs with sites within 600 bp upstream = 805 Fraction of orfs with sites within 600 bp upstream = 0.129296 Motif number 7 TGATCGCGTACGTCCAGACCTGGGCCATGGTTGCGC 1 45 0 CGTCACTGCC 0.974429 -57 CACCGGCATCACGAGAACCAGAGGGAGCA 3 4 1 CGGCTGAGCC 0.967221 -39 CGTTGAACTTCGGCTACGAGTGGTCCCTAGCCTCGG 7 56 0 CGGCAGTGCC 0.96379 -43 CGACGCGACGTGGCCCCTGGTGCATCGGTCAGGACG 8 101 0 TGGCCGTGTC 0.869993 -101 GGCCACGTCGCGTCGCGGACAGTCCCATGTTAGCTG 8 122 1 CGTCCCAGCC 0.987781 -80 TCAGCCGCTTCGTCACATGCTGTATCGGACTACAAC 10 108 0 CGTCCCTGTC 0.97885 -193 GCTAAGTTCGCGGGGTTGGCTGAGCCAGAGGCTCAG 10 140 0 CGGGTCTGCC 0.888112 -161 CGAACAAACCCGTCACGGTGTGGACCAAATGTGGTA 10 220 0 CGTCCGTGCC 0.995155 -81 TCGGCACAACCGTCCTAAACTGATCCCGTGAGCATG 10 272 1 CGTCTCTGCC 0.99215 -29 GTCCCCGGCGCGACCTATGGAGAACCGGAAGCTGTA 11 33 0 CGACTGAGCC 0.820383 -268 GTCGTGTGCGCGTCTTTCAGTGCACCGTGCGAAACG 11 78 1 CGTCTGTGCC 0.991202 -223 CCGAATCGCCCGGCTCCTCCTCACCCCG 15 3 0 CGGCCCTCCC 0.927099 -199 CCACCGTTGCCGTCCCGGACCGCATCCCCCTACATT 15 54 0 CGTCCCCGTC 0.879513 -148 ACGTAGGCCGTGTAGCCCAGTGTGCCACCGTTGCCG 15 78 0 TGTACGTGCC 0.716328 -124 GCCTGCGTCCGGTCGCGGGCTGACTCCGGTCACCAG 16 49 1 GGTCCCTGTC 0.818773 -252 TAATGAAACGTGTTCTAGCCTGGCCCC 20 2 0 TGTTTCTGCC 0.607713 -110 TAGCTGTCCTAGTGAGGACCTTCTGCCAGT 20 92 0 TGTCTGAGCC 0.894383 -20 **** * *** ** Masking position 2 Map Score: 22.654 Number of sites scoring better than the average of aligned sites = 4997 Number in coding regions = 4743 Number in noncoding regions = 254 Number of orfs with sites within 600 bp upstream = 241 Fraction of orfs with sites within 600 bp upstream = 0.0387086 Motif number 8 CCGCACAGCGGCGGTGATCGCGTACGTCCAGAC 1 62 0 GCGGTATCCT 0.902429 -40 GACTAGGATCGCGGTTATCACCG 4 82 1 GCGGTATCCG 0.992302 -13 CGCTGCGCTCGGCATCGTCGCCGGCGGTCATGG 5 57 0 GGCATGTCCG 0.858957 -42 CTGCTGTTCAGCGGTGCTTTCAGGTGGAGTTCA 11 124 0 GCGGTCTTCG 0.932392 -177 CCAGCACAGGGCCGTGATATCGGTATACCGCTT 11 249 0 GCCGTATACG 0.959225 -52 GCGGTTCTCCTTGCAGACGCTGG 11 288 0 GCGGTCTCTG 0.88411 -13 GCGGCGGCCGGCGACGGTAGCGGCATGATGGAG 12 49 1 GCGACGTACG 0.755817 -25 CACCATCGCCGGGATCATCACTGG 16 2 0 GGGATATCCG 0.955097 -299 CATACTGATCGCGGTCCTAGCGGTATTTCTTGC 16 137 0 GCGGTCTACG 0.982417 -164 GTTCACGCTCGGCGTAATAACGGCTCATGCCAG 16 214 0 GGCGTATACG 0.923285 -87 CTCGGTCATCGGGGTGATAGCGGACCACCCTAT 17 49 0 GGGGTATACG 0.971967 -31 CACTGCCGTTGCGATAGTCTCCGGCC 18 4 0 GCGATGTCCG 0.971601 -27 ***** *** * * Masking position 8 Map Score: 12.8727 Number of sites scoring better than the average of aligned sites = 3392 Number in coding regions = 3178 Number in noncoding regions = 214 Number of orfs with sites within 600 bp upstream = 181 Fraction of orfs with sites within 600 bp upstream = 0.0290716 Motif number 9 GGCGCTCATCCTGTGCTCCCTCTGGTTCT 3 24 0 CCTGTGCTCC 0.658286 -19 CGAGCGCATCCGACTGACCTTATATATCC 4 10 1 CCGACTGACC 0.212476 -85 TTTTCTATTGCTGGTTCAACCGGGTGACTA 4 57 1 CTGGTTCAAC 0.646165 -38 ATGCGCCGCTCCTCCTCATCGCTGC 5 84 0 CCGCTCCTCC 0.729835 -15 CTGGCACACCCTACGGCCCG 6 26 0 CTGGCACACC 0.92289 -10 CTAGCCTCGGCCGGAACGCCGACTGGCTGA 7 36 0 CCGGAACGCC 0.71749 -63 ATCCGCAAGGCCGCTACACCGTCCTGACCG 8 82 1 CCGCTACACC 0.944791 -120 ACCGTCCTGACCGATGCACCAGGGGCCACG 8 99 1 CCGATGCACC 0.804427 -103 AGTAAGGTATCCGGCTCACCCAGAGTTGTC 10 47 0 CCGGCTCACC 0.986419 -254 CCGTTGTAGTCCGATACAGCATGTGACGAA 10 106 1 CCGATACAGC 0.667699 -195 GGCTGAGCCTCTGGCTCAGCCAACCCCGCG 10 138 1 CTGGCTCAGC 0.885728 -163 TCTTTTTTAGGTGCCACAGCCAAAGAGTCT 10 183 1 GTGCCACAGC 0.25021 -118 ATCCACGAAATCGGCACAACCGTCCTAAAC 10 262 1 TCGGCACAAC 0.426121 -39 TGGTTGGCGACTTGTACAGCTTCCGGTTCT 11 19 1 CTTGTACAGC 0.311111 -282 TGTACAGCTTCCGGTTCTCCATAGGTCGCG 11 31 1 CCGGTTCTCC 0.913731 -270 CTGCCCGTCCCCGGCGCGACCTATGGAGAA 11 45 0 CCGGCGCGAC 0.942463 -256 ACGTTTGATCACGCCACAACCCACCGACAC 11 192 1 ACGCCACAAC 0.509765 -109 TATCGGTATACCGCTTCTGCGTAACGATTT 11 235 0 CCGCTTCTGC 0.791746 -66 CTTGCAGACGCTGGCTTAGCCCAGCACAGG 11 272 0 CTGGCTTAGC 0.162013 -29 CCGTCGCCGGCCGCCGCAGTCACACTCAAT 12 36 0 CCGCCGCAGT 0.45538 -38 CTCATCTGCGCCGCTCCTCCTCATCGCTTC 13 12 1 CCGCTCCTCC 0.729835 -289 TGCATCGTCACCGGCGCGACTCATCTGCGC 13 46 1 CCGGCGCGAC 0.942463 -255 CTGCGCCGCTCCTGCTCATCGCTTCGCTCT 13 70 1 CCTGCTCATC 0.587564 -231 TGCATCGTCACCGGCGCGACTCATCTGCGC 13 99 1 CCGGCGCGAC 0.942463 -202 CTGCGCCGCTCCTGCTCATCGCTTCGCTCT 13 123 1 CCTGCTCATC 0.587564 -178 TGCATCGTCACCGGCGCGACTCATCTGCGC 13 152 1 CCGGCGCGAC 0.942463 -149 CTGCGCCGCTCCTGCTCATCGCTTCGCTCT 13 176 1 CCTGCTCATC 0.587564 -125 TGCATCGTCACCGGCGCGACTCATCTGCGC 13 205 1 CCGGCGCGAC 0.942463 -96 CTCATCTGCGCCGCTCCTCCTCATCGCTTC 13 224 1 CCGCTCCTCC 0.729835 -77 ATGGTCAGCGACGCTACACCGTAGGTTGGA 13 277 1 ACGCTACACC 0.55188 -24 TCGCCCGGCTCCTCCTCACCCCG 15 4 0 CCTCCTCACC 0.846691 -198 ACCACTCAGACCGCAACAGCTGACAGCCCC 15 146 0 CCGCAACAGC 0.657944 -56 CGGCGAAAGGATGGTGCACCA 16 290 1 ATGGTGCACC 0.32679 -11 GCGGCACTGCCGTTGCGATA 18 21 0 GCGGCACTGC 0.55615 -10 ********** Masking position 10 Map Score: 33.0662 Number of sites scoring better than the average of aligned sites = 27197 Number in coding regions = 25319 Number in noncoding regions = 1878 Number of orfs with sites within 600 bp upstream = 1013 Fraction of orfs with sites within 600 bp upstream = 0.162705 Motif number 10 ACCTAACTTACTTAGGTAGCATGGCATGCC 2 69 1 CTGGAGTGGC 0.986133 -20 TCGCGTTCGGCTTGGGTAGGGTGACGCCATGACCG 5 31 1 CTGGAGTGAC 0.836139 -68 TGGTCGATAGCCTAGCGGGCCGTAGG 6 2 1 GGGAAGTAGC 0.874226 -34 AGCCTCGGCCGGAACGCCGACTGGCTGAGTGTAGG 7 29 0 GGCGCGTGGC 0.878568 -70 TTAGCTGCATGTTTAGCAGACTGGCTTGCCTCCTG 8 151 1 GTAGAGTGGC 0.963138 -51 GCTGTGGCACCTAAAAAAGACTGTCAAGCTAAGTT 10 168 0 CTAAAGTGTC 0.567786 -133 TTTGCATGGCCGACAACAGTTTGGCG 12 2 0 CGAAAGTGGC 0.956498 -72 CCGGGCGATTCGGTTGGAGCCTGGCCTCAATGTAG 15 26 1 CGTGAGTGGC 0.96738 -176 CGCCGTGCGACGTAGGCCGTGTAGCCCAGTGTGCC 15 88 0 CGGGCGTAGC 0.835451 -114 GGACGCAGGCGGCCAGCAGTATGTCACCATCGCCG 16 24 0 GGAGAGTGTC 0.87501 -277 TGGCCGGGTGGGATGGGAGTTTGGCGTGCTACTCA 16 168 0 GGGGAGTGGC 0.993404 -133 GGTACACGCTCGGCGAAAGGATGGTGCACCA 16 280 1 CGGAAGTGGT 0.874226 -21 TTACTCCGGAGTAAGATAGGGTGGTCCGCTATCAC 17 34 1 GTGAAGTGGT 0.766478 -46 GTAATGAAACGTGTTCTAGCCTGGCCCC 20 4 0 GTTCAGTGGC 0.670482 -108 ** ** ** **** Masking position 12 Map Score: 8.8019 Number of sites scoring better than the average of aligned sites = 2690 Number in coding regions = 2482 Number in noncoding regions = 208 Number of orfs with sites within 600 bp upstream = 219 Fraction of orfs with sites within 600 bp upstream = 0.0351751 Motif number 11 GCGTCACCCTACCCAAGCCGAACGCGAAAC 5 28 0 ACCCAAGCCG 0.717745 -71 TGCGCTCGGCATCGTCGCCGGCGGTCATGG 5 57 0 ATCGTCGCCG 0.986779 -42 ATATTGCCTCATCGAGACCGTATCCGCAAG 8 61 1 ATCGAGACCG 0.968431 -141 CCGCTACACCGTCCTGACCGATGCACCAGG 8 92 1 GTCCTGACCG 0.882567 -110 ACCACGTCTTGTCCATGCCGGGAGCCGTC 9 34 1 GTCCATGCCG 0.669325 -19 ACCACATTTGGTCCACACCGTGACGGGTTT 10 221 1 GTCCACACCG 0.942244 -80 CGTGCGAAACGCCGACACCGTTGAACTCCA 11 103 1 GCCGACACCG 0.977578 -198 GCCACAACCCACCGACACCGTCACTACCCT 11 204 1 ACCGACACCG 0.988357 -97 TCATGCCGCTACCGTCGCCGGCCGCCGCAG 12 47 0 ACCGTCGCCG 0.988362 -27 TTCGCTCTGCATCGTCACCGGCGCGACTCA 13 39 1 ATCGTCACCG 0.988177 -262 TTCGCTCTGCATCGTCACCGGCGCGACTCA 13 92 1 ATCGTCACCG 0.988177 -209 TTCGCTCTGCATCGTCACCGGCGCGACTCA 13 145 1 ATCGTCACCG 0.988177 -156 TTCGCTCTGCATCGTCACCGGCGCGACTCA 13 198 1 ATCGTCACCG 0.988177 -103 TTCGCTCTGCATCGTCACCGGCGCGCATGG 13 251 1 ATCGTCACCG 0.988177 -50 CCAGTGTGCCACCGTTGCCGTCCCGGACCG 15 68 0 ACCGTTGCCG 0.92187 -134 ACTACCGACCACTCAGACCGCAACAGCTGA 15 153 0 ACTCAGACCG 0.424291 -49 CACCCCGATGACCGAGGCTGCCGT 17 66 1 ACCGAGGCTG 0.607185 -14 ********** Masking position 10 Map Score: 39.6189 Number of sites scoring better than the average of aligned sites = 7013 Number in coding regions = 6643 Number in noncoding regions = 370 Number of orfs with sites within 600 bp upstream = 296 Fraction of orfs with sites within 600 bp upstream = 0.0475426 Motif number 12 TGGTTCTCGTGATGCCGGTG 3 1 0 GATGCCGGTG 0.661906 -42 GCTCGGCATCGTCGCCGGCGGTCATGGCGT 5 54 0 GTCGCCGGCG 0.932871 -45 CTAAGTTCGCGGGGTTGGCTGAGCCAGAGG 10 145 0 GGGGTTGGCT 0.74548 -156 GTGGGTCGTGGTTGGCGACTTGTACAG 11 8 1 GTGGTTGGCG 0.947691 -293 GGAGTTCAACGGTGTCGGCGTTTCGCACGG 11 102 0 GGTGTCGGCG 0.985996 -199 GGGTAGTGACGGTGTCGGTGGGTTGTGGCG 11 203 0 GGTGTCGGTG 0.952915 -98 CGCCAAACTGTTGTCGGCCATGCAAATTG 12 10 1 GTTGTCGGCC 0.952677 -64 TGTGACTGCGGCGGCCGGCGACGGTAGCGG 12 42 1 GCGGCCGGCG 0.950494 -32 ACCGGCGCGCATGGTCAGCGACGCTACACC 13 267 1 ATGGTCAGCG 0.675535 -34 TGCGGTCTGAGTGGTCGGTAGTTGTCAGTG 15 161 1 GTGGTCGGTA 0.801392 -41 GTGGTCGGTAGTTGTCAGTGGCGTGCTGTA 15 171 1 GTTGTCAGTG 0.826904 -31 CCTGGTGACCGGAGTCAGCCCGCGACCGGA 16 56 0 GGAGTCAGCC 0.50625 -245 GTAAGATAGGGTGGTCCGCTATCACCCCGA 17 44 1 GTGGTCCGCT 0.762204 -36 ********** Masking position 4 Map Score: 6.93381 Number of sites scoring better than the average of aligned sites = 16974 Number in coding regions = 16124 Number in noncoding regions = 850 Number of orfs with sites within 600 bp upstream = 596 Fraction of orfs with sites within 600 bp upstream = 0.0957276 Motif number 13 CGTTTCGGATCTCCTCGCCGCAC 1 89 0 TTCGGATCTC 0.764115 -13 CTGTGCTCCCTCTGGTTCTCGTGATGCCGG 3 13 0 TCTGGTTCTC 0.923156 -30 CGAGCGCATCCGACTGACCTTATATATC 4 9 1 TCCGACTGAC 0.839976 -86 TCCCAACTTCTCCGACTCTCATCATCGATT 8 18 1 TCCGACTCTC 0.972642 -184 CAGTAAGGTATCCGGCTCACCCAGAGTTGT 10 48 0 TCCGGCTCAC 0.990108 -253 CGGCTGAGCCTCTGGCTCAGCCAACCCCGC 10 137 1 TCTGGCTCAG 0.839976 -164 TTGTACAGCTTCCGGTTCTCCATAGGTCGC 11 30 1 TCCGGTTCTC 0.977796 -271 ********** Masking position 7 Map Score: 2.57574 Number of sites scoring better than the average of aligned sites = 684 Number in coding regions = 633 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 14 CCGCCGCTGTGCGGCGAGGAGATCCGAAACG 1 81 1 GCGGCGAGGG 0.981784 -21 ACTCAGCCAGTCGGCGTTCCGGCCGAGGCTA 7 34 1 TCGGCGTTCG 0.695628 -65 GGACGGTGTAGCGGCCTTGCGGATACGGTCT 8 75 0 GCGGCCTTGG 0.80945 -127 GGGACTGTCCGCGACGCGACGTGGCCCCTGG 8 117 0 GCGACGCGAG 0.901619 -85 TCGGATGGTCGCGGCAGGAGGCAAGCCAGTC 8 169 0 GCGGCAGGAG 0.963097 -33 AACACGTCGCGCGGCGAAATGACAACTCTGG 10 27 1 GCGGCGAAAG 0.936156 -274 CCGGGGACGGGCAGCGGGTCGTGTGCGCGTC 11 61 1 GCAGCGGGTG 0.656103 -240 GAGTGTGACTGCGGCGGCCGGCGACGGTAGC 12 39 1 GCGGCGGCCG 0.960598 -35 GGCGACGGTAGCGGCATGATGGAGTG 12 58 1 GCGGCATGAG 0.942705 -16 GTAGTTGTCAGTGGCGTGCTGTAGGAACAAC 15 178 1 GTGGCGTGCG 0.886041 -24 CCGGACGCAGGCGGCCAGCAGTATGTCACCA 16 30 0 GCGGCCAGCG 0.984927 -271 GAGTCAGCCCGCGACCGGACGCAGGCGGCCA 16 44 0 GCGACCGGAG 0.899704 -257 CTTATCCCGCGCGGCCCGCGGGGAGATCTGG 16 99 0 GCGGCCCGCG 0.981874 -202 GGGTACACGCTCGGCGAAAGGATGGTGCACC 16 279 1 TCGGCGAAAG 0.630047 -22 ********* * Masking position 5 Map Score: 14.6099 Number of sites scoring better than the average of aligned sites = 7597 Number in coding regions = 7029 Number in noncoding regions = 568 Number of orfs with sites within 600 bp upstream = 422 Fraction of orfs with sites within 600 bp upstream = 0.0677803 Motif number 15 GTATAGGTTACCTAACTTACTTAGGTAGCAT 2 60 1 CCTACTTACT 0.97998 -29 CGCAAACCTGCTTTCATCGTTG 7 87 0 GCAACCTGCT 0.88833 -12 GGGTGAGCCGGATACCTTACTGGGTGCAGTC 10 56 1 GATACTTACT 0.883377 -245 AACAAGCACCCCTATCTTACTCCGGAGTAAG 17 18 1 CCTACTTACT 0.979985 -62 AGCGGACCACCCTATCTTACTCCGGAGTAAG 17 33 0 CCTACTTACT 0.979985 -47 AGGCATTGAAGCAACCTTGCTTGTCATAGTA 20 36 0 GCAACTTGCT 0.956055 -76 **** ****** Masking position 4 Map Score: 1.25432 Number of sites scoring better than the average of aligned sites = 8 Number in coding regions = 5 Number in noncoding regions = 3 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234