AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i001_bsub_mtub_300.orf -o001_bsub_mtub_300.ace -a/home/amcguire/genomes/ORF_bsub.txt -z/home/amcguire/genomes/bsub.fna -g0.55 -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 = 0.55 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 purE 300 phosphoribosylaminoimidazole carboxylase I #2 purC 72 phosphoribosylaminoimidazole succinocarboxamide synthetase #3 purM 101 phosphoribosylaminoimidazole synthetase #4 aldA 201 aldA #5 Rv0769 30 hypothetical protein Rv0769 #6 Rv0770 97 hypothetical protein Rv0770 #7 purC 50 purC #8 purQ 300 purQ #9 purL 191 purL #10 Rv0807 300 hypothetical protein Rv0807 #11 purF 86 purF #12 purM 30 purM #13 Rv0954 164 hypothetical protein Rv0954 #14 Rv0955 39 hypothetical protein Rv0955 #15 purN 115 purN Motif number 1 CTTCTTCTAAGCCGCCGCAGTTTGAAAATT 2 26 1 GCCGCCGCAG 0.991749 -47 ATGACATAAAGGCAGCGCAGTTCGGCTGCC 3 21 1 GGCAGCGCAG 0.97802 -81 CTTGCCTCCTGCCGCGACCATCCGATAGCT 4 18 0 GCCGCGACCA 0.857488 -184 CGCGGCAGGAGGCAAGCCAGTCTGCTAAAC 4 32 1 GGCAAGCCAG 0.790995 -170 TGGGACTGTCCGCGACGCGACGTGGCCCCT 4 74 1 CGCGACGCGA 0.779757 -128 GACCGATGCACCAGGGGCCACGTCGCGTCG 4 86 0 CCAGGGGCCA 0.567593 -116 AGACCGTATCCGCAAGGCCGCTACACCGTC 4 118 0 CGCAAGGCCG 0.959081 -84 CTGCATCGGCGCCGGCGCCGG 6 2 0 GCCGGCGCCG 0.994705 -96 CGGCGCCGGCGCCGATGCAGAGCGGGGCGA 6 12 1 GCCGATGCAG 0.696177 -86 ATGAGGTGGGGGCACGCCCCCACAAGTGGG 6 41 1 GGCACGCCCC 0.692659 -57 GCCGCTCTCCCCCGCCAGCGGATGGGGGTA 6 74 0 CCCGCCAGCG 0.831987 -24 GCCTATCCGCCGCACGACGGCGCCCTGTGC 7 24 0 CGCACGACGG 0.895142 -27 CCCGGCGACAGCGGCCGCCAGGAGCCGGGC 8 15 0 GCGGCCGCCA 0.917662 -286 GCTGTCGCCGGGCGCGGCGGGCAGATCTGA 8 33 1 GGCGCGGCGG 0.986671 -268 GACCACCCTGGCCACCGGCGCTCCTCCTCA 8 60 0 GCCACCGGCG 0.965937 -241 GCATGTGATGCCCAAGGCGGAGATTCTTGA 8 92 1 CCCAAGGCGG 0.94102 -209 ATTCTTGACCCGCAGGGCCAGGCGATTGTC 8 114 1 CGCAGGGCCA 0.907952 -187 AGATGCCCAAGCCGCCCCAGCGCACCGACA 8 140 0 GCCGCCCCAG 0.974904 -161 ATCACTGTTGGCCAACACCGTGATCGAGGA 8 257 1 GCCAACACCG 0.911423 -44 TGGACGATCAGCCGGGACCCGCA 8 288 1 GCCGGGACCC 0.601705 -13 TTCCATTTTGCGCACCACCATCCTGAGCGC 9 13 1 CGCACCACCA 0.796868 -179 ATCCTGAGCGCCCGCCCCGATGTCAGCCCG 9 32 1 CCCGCCCCGA 0.834081 -160 GACGGCTGATGCCACCGGGGTTCTTGCCGC 9 61 1 GCCACCGGGG 0.934715 -131 GATAGGTATGCCCGCGGCAAGAACCCCGGT 9 74 0 CCCGCGGCAA 0.913431 -118 CCGTGTCAACGCGGCCGCAGCGCGATGGGG 9 115 1 GCGGCCGCAG 0.965477 -77 CGGGGTCCGGGCGAGCGGAGACATCACGGA 9 160 0 GCGAGCGGAG 0.631757 -32 CTCCGCTCGCCCGGACCCCGCGCAAAACGT 9 170 1 CCGGACCCCG 0.658002 -22 TCCCTGAGTTCCCAAGGCGGTGA 10 4 0 CCCAAGGCGG 0.94102 -297 TCTCACAGATCGCGGGTCGGCGCAGGTTGA 10 58 1 CGCGGGTCGG 0.45482 -243 TGGACCCCGCGCCAGCGCGGTCAACCTGCG 10 78 0 GCCAGCGCGG 0.987027 -223 AACTTGACATGGCGCGGCCGCAACAACCAG 10 183 0 GGCGCGGCCG 0.993034 -118 CGGGTTGTATGCGAGCCCAGTTCCGAACTG 10 213 0 GCGAGCCCAG 0.819387 -88 CAGATGGCGGCCAAGCGCCGCTGCTGAGAC 10 249 0 CCAAGCGCCG 0.901181 -52 ACACCATAGCCGCAGCTCAGCACGCCGGAA 11 11 0 CGCAGCTCAG 0.640956 -76 TTACGTGTCGGGCACCCCGGCGCCACCCTC 11 43 0 GGCACCCCGG 0.956677 -44 GACGTCTGCACCGCCGAATTCGGCTT 11 71 0 TGCACCGCCG 0.906041 -16 CAAAACGCACGCGCGGTAGCCTTTA 12 6 1 CGCACGCGCG 0.56968 -25 CGGCCGCTTGCCCGGCGCAGGTGGAACACG 13 25 0 CCCGGCGCAG 0.984357 -140 CATTAACGACTGGACGGCCGCTTGCCCGGC 13 39 0 TGGACGGCCG 0.608346 -126 CGTTAATGTCGCGAGCGCCGGTCGCTCCGG 13 61 1 GCGAGCGCCG 0.972073 -104 ACGTTCGGGTGCCGCTGCCGGAGCGACCGG 13 78 0 GCCGCTGCCG 0.959208 -87 CTGTGCTCCCGGCGACGCGATTCGATCAAC 13 119 0 GGCGACGCGA 0.81545 -46 TCGCGTCGCCGGGAGCACAGCGTCGCACTG 13 129 1 GGGAGCACAG 0.651699 -36 ACCGGACGCGGGAACGCCCGG 14 2 0 GGAACGCCCG 0.744684 -38 TTCGCGCACACGCGCGACCGGACGCGGGAA 14 18 0 CGCGCGACCG 0.947968 -22 TGCGGCCTCACCAACCGCAGA 15 2 0 CCAACCGCAG 0.846259 -114 CAGCCTGCATCCCAGTGCAGACTCAGTACC 15 54 0 CCCAGTGCAG 0.788157 -62 ********** Masking position 8 Map Score: 69.7236 Number of sites scoring better than the average of aligned sites = 7869 Number in coding regions = 7318 Number in noncoding regions = 551 Number of orfs with sites within 600 bp upstream = 257 Fraction of orfs with sites within 600 bp upstream = 0.0412785 Motif number 2 TAAGTTTCTACCCGGCAACCGTAAATTGCCG 1 114 1 CCGGCAACCG 0.976518 -187 ACGGCTTCTTCTAAGCCGCCGCAGTTTGAAA 2 22 1 CAAGCCGCCG 0.870314 -51 GGCAGCCGAACTGCGCTGCCTTTATGTCATT 3 20 0 CGCGCTGCCT 0.626652 -82 GCAGAAAGAGAAAGGCAGCCGAACTGCGCTG 3 33 0 AAGGCAGCCG 0.881757 -69 ATCGGATGGTCGCGGCAGGAGGCAAGCCAGT 4 22 1 CCGGCAGGAG 0.850871 -180 CGCTCTGCATCGGCGCCGGCGCCGG 6 5 0 CGCGCCGGCG 0.787973 -93 CGCCGCTCTCCCCCGCCAGCGGATGGGGGTA 6 74 0 CCCGCCAGCG 0.971747 -24 CGTGCGGCGGATAGGCTGGCGCG 7 38 1 AAGGCTGGCG 0.826394 -13 TTGCCCGGCTCCTGGCGGCCGCTGTCGCCGG 8 13 1 CTGGCGGCCG 0.971347 -288 GCCCGCCGCGCCCGGCGACAGCGGCCGCCAG 8 24 0 CCGGCGACAG 0.870473 -277 TGTCGCCGGGCGCGGCGGGCAGATCTGAGGA 8 35 1 CCGGCGGGCA 0.841213 -266 GCACGACCACCCTGGCCACCGGCGCTCCTCC 8 63 0 CTGGCCACCG 0.943951 -238 CTTGACCCGCAGGGCCAGGCGATTGTCGGTG 8 117 1 AGGCCAGGCG 0.647998 -184 GATGCCCAAGCCGCCCCAGCGCACCGACAAT 8 138 0 CGCCCCAGCG 0.849428 -163 AGATGTGCGTCAGGGCAAGAGGTTTGAGCTG 8 179 1 CGGGCAAGAG 0.888659 -122 ATTCTGCGATCTCGGCAAGCGTGGTGTCATC 8 228 0 CCGGCAAGCG 0.9751 -73 GGGCTGACATCGGGGCGGGCGCTCAGGATGG 9 30 0 CGGGCGGGCG 0.986993 -162 TTGTCCGTGTCAACGCGGCCGCAGCGCGATG 9 111 1 CACGCGGCCG 0.978746 -81 TGCGCGGGGTCCGGGCGAGCGGAGACATCAC 9 163 0 CGGGCGAGCG 0.993687 -29 TGTATGGACCCCGCGCCAGCGCGGTCAACCT 10 81 0 CGCGCCAGCG 0.98716 -220 GAACTTGACATGGCGCGGCCGCAACAACCAG 10 183 0 TGCGCGGCCG 0.839151 -118 CAGTTCGGAACTGGGCTCGCATACAACCCGA 10 213 1 CGGGCTCGCA 0.623886 -88 CCTCACACACCATAGCCGCAGCTCAGCACGC 11 16 0 CTAGCCGCAG 0.215699 -71 AGGGTGGCGCCGGGGTGCCCGACACGTAAGC 11 44 1 CGGGTGCCCG 0.689269 -43 GACGTCTGCACCGCCGAATTCGGCTT 11 71 0 CGCACCGCCG 0.756134 -16 CAAAACGCACGCGCGGTAGCCTT 12 3 1 AACGCACGCG 0.61244 -28 CGCGATAAAGGCTACCGCGCGTGCGTT 12 14 0 AAGGCTACCG 0.757513 -17 TCCACCTGCGCCGGGCAAGCGGCCGTCCAGT 13 30 1 CGGGCAAGCG 0.988788 -135 GTGCCGCTGCCGGAGCGACCGGCGCTCGCGA 13 69 0 CGAGCGACCG 0.949059 -96 TCGCTCCGGCAGCGGCACCCGAACGTGCGCT 13 82 1 ACGGCACCCG 0.813962 -83 ATTCGATCAACCACGCTAGCGCACGTTCGGG 13 99 0 CACGCTAGCG 0.910525 -66 CAGTGCGACGCTGTGCTCCCGGCGACGCGAT 13 128 0 CGTGCTCCCG 0.622559 -37 CTTCGCGCACACGCGCGACCGGACGCGGGAA 14 18 0 AGCGCGACCG 0.948179 -22 * ********* Masking position 6 Map Score: 53.5641 Number of sites scoring better than the average of aligned sites = 2204 Number in coding regions = 2062 Number in noncoding regions = 142 Number of orfs with sites within 600 bp upstream = 77 Fraction of orfs with sites within 600 bp upstream = 0.0123675 Motif number 3 CGATCACTTTCCTGCATAGTCCGGCAATTTACG 1 133 0 CCCATAGCCG 0.886387 -168 TTATGAGGAAGCAATACAAACCGGGCATGGTAC 1 214 0 GCTACAACCG 0.84738 -87 GGAAGGCCTCCTAACCCGAATGTTGGGA 2 55 0 GCCCTAACCG 0.916717 -18 TTGCCTCCTGCCGCGACCATCCGATAGCTTGGA 4 14 0 CCGACCACCG 0.984699 -188 CCGCAAGGCCGCTACACCGTCCTGACCGATGCA 4 106 0 GCCACCGCCT 0.960377 -96 TTCCTTTCTGCGCTGTCAACCCGCTAG 5 5 0 CGGTCAACCG 0.573224 -26 CAAGTGGGAGGTACCCCCATCCGCTGGCGGGGG 6 63 1 GTCCCCACCG 0.935363 -35 ACCAGAGATACCAGCACAGGGCGCCGTCGTGCG 7 11 1 CCCACAGGCG 0.89713 -40 CGCGCCAGCCTATCCGCCGCACGACG 7 35 0 GCGCCTACCG 0.774455 -16 GCCGCGCCCGGCGACAGCGGCCGCCAGGAGCCG 8 18 0 GCCAGCGCCG 0.953515 -283 CTCAGATCTGCCCGCCGCGCCCGGCGACAGCGG 8 31 0 CCCCGCGCCG 0.900352 -270 GGCATCACATGCACGACCACCCTGGCCACCGGC 8 71 0 GCGACCACCT 0.949897 -230 TCGTGCATGTGATGCCCAAGGCGGAGATTCTTG 8 88 1 GACCCAAGCG 0.540862 -213 TTCTTGACCCGCAGGGCCAGGCGATTGTCGGTG 8 115 1 GCGGCCAGCG 0.830979 -186 GATATTCCGAGATGCCCAAGCCGCCCCAGCGCA 8 146 0 GACCCAACCG 0.832891 -155 TCGTCGACCTCCAGCTCAAACCTCTTGCCCTGA 8 188 0 CCCTCAACCT 0.643259 -113 GGCAAGCGTGGTGTCATCAACCGTATCGTCGAC 8 213 0 GTCATCACCG 0.807415 -88 ATCGAGGACTGGACGATCAGCCGGGACCCGCA 8 279 1 GGGATCACCG 0.816731 -22 TCCATTTTGCGCACCACCATCCTGAGCGCCCGC 9 14 1 GCCACCACCT 0.965859 -178 GCGCCCGCCCCGATGTCAGCCCGACGGCTGATG 9 39 1 CGGTCAGCCG 0.535075 -153 AAGAACCCCGGTGGCATCAGCCGTCGGGCTGAC 9 53 0 GTCATCACCG 0.807415 -139 GCCGCGTTGACACGGACAAGCCGACGGATAGGT 9 97 0 CAGACAACCG 0.734274 -95 GTCTAGCTAGGCCCCATCGCGCTGCGGCCGCGT 9 123 0 GCCATCGGCT 0.547764 -69 TCCGTGATGTCTCCGCTCGCCCGGACCCCGCGC 9 160 1 CTGCTCGCCG 0.514716 -32 TGTATGGACCCCGCGCCAGCGCGGTCAACCTGC 10 79 0 CCGCCAGGCG 0.810076 -222 GAACTGGGCTCGCATACAACCCGATCCCAGTCT 10 220 1 CGTACAACCG 0.398407 -81 GTCGGGCACCCCGGCGCCACCCTCACACACCAT 11 34 0 CCCGCCACCT 0.769225 -53 GGGTGCCGCTGCCGGAGCGACCGGCGCTCGCGA 13 69 0 GCGAGCGCCG 0.932195 -96 GCGACCGGACGCGGGAACGCCCGG 14 2 0 GCGAACGCCG 0.775801 -38 GACAGTTGCGGCCTCACCAACCGCAGA 15 5 0 GCCACCACCG 0.993752 -111 AAGCGTGTGAGCACCACCAGCCTGCATCCCAGT 15 68 0 GCCACCACCT 0.965859 -48 GCCTAGTCTGGCTCCTCAAAGCGTGTGAGCACC 15 86 0 GCCTCAAGCG 0.798737 -30 ** ***** *** Masking position 12 Map Score: 42.6145 Number of sites scoring better than the average of aligned sites = 2693 Number in coding regions = 2494 Number in noncoding regions = 199 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 4 AGGCAGCGCAGTTCGGCTGCCTTTCTCTTT 3 30 1 GTTCGGCTGC 0.783309 -72 TAGCAGACTGGCTTGCCTCCTGCCGCGACC 4 29 0 GCTTGCCTCC 0.942664 -173 GCTAACATGGGACTGTCCGCGACGCGACGT 4 67 1 GACTGTCCGC 0.545693 -135 CCGCGACGCGACGTGGCCCCTGGTGCATCG 4 83 1 ACGTGGCCCC 0.933035 -119 GACCGTATCCGCAAGGCCGCTACACCGTCC 4 117 0 GCAAGGCCGC 0.86214 -85 ACTTGTGGGGGCGTGCCCCCACCTCATCGC 6 38 0 GCGTGCCCCC 0.990269 -60 GAGCGCCGCTCTCCCCCGCCAGCGGAT 6 81 0 GCTCTCCCCC 0.85843 -17 CATTGCCCGGCTCCTGGCGGCCGC 8 5 1 GCCCGGCTCC 0.974412 -296 TCCTCCTCAGATCTGCCCGCCGCGCCCGGC 8 39 0 ATCTGCCCGC 0.719975 -262 CTGGCCACCGGCGCTCCTCCTCAGATCTGC 8 53 0 GCGCTCCTCC 0.769945 -248 ACCGACAATCGCCTGGCCCTGCGGGTCAAG 8 117 0 GCCTGGCCCT 0.840406 -184 CCACCATCCTGAGCGCCCGCCCCGATGTCA 9 27 1 GAGCGCCCGC 0.94345 -165 CGACGGATAGGTATGCCCGCGGCAAGAACC 9 79 0 GTATGCCCGC 0.822112 -113 GTCCGTGTCAACGCGGCCGCAGCGCGATGG 9 113 1 ACGCGGCCGC 0.933274 -79 AGGCAGTCTAGCTAGGCCCCATCGCGCTGC 9 131 0 GCTAGGCCCC 0.944722 -61 GGCCTAGCTAGACTGCCTCCGTGATGTCTC 9 143 1 GACTGCCTCC 0.813542 -49 GTCTCCGCTCGCCCGGACCCCGCGCAAAAC 9 168 1 GCCCGGACCC 0.903122 -24 ACTTGACATGGCGCGGCCGCAACAACCAGG 10 182 0 GCGCGGCCGC 0.992965 -119 CAGCAGCGGCGCTTGGCCGCCATCTGGATG 10 253 1 GCTTGGCCGC 0.985638 -48 CTGGACGGCCGCTTGCCCGGCGCAGGTGGA 13 30 0 GCTTGCCCGG 0.771838 -135 CCGGGCGTTCCCGCGTCCGGTCGC 14 5 1 GCGTTCCCGC 0.924381 -35 TCTGCGGTTGGTGAGGCCGCAACTGTCTGA 15 11 1 GTGAGGCCGC 0.879157 -105 AGCACCACCAGCCTGCATCCCAGTGCAGAC 15 62 0 GCCTGCATCC 0.689467 -54 GGCGAGCCTAGTCTGGCTCCTCAAAGCGTG 15 94 0 GTCTGGCTCC 0.884058 -22 ********** Masking position 7 Map Score: 40.5793 Number of sites scoring better than the average of aligned sites = 1470 Number in coding regions = 1354 Number in noncoding regions = 116 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 5 TATGGGCCATATTCCCAAGATTATATGAGG 1 86 0 ATTCCCAAGA 0.88178 -215 TCTGTTCCCCACCTTCTAATGCT 1 288 0 GTTCCCCACC 0.817237 -13 CAGTTTGAAAATTCCCAACATTCGGGTTAG 2 43 1 ATTCCCAACA 0.812968 -30 ATGTCCAAGCTATCGGATGG 4 1 1 ATGTCCAAGC 0.891538 -201 GTCCTGACCGATGCACCAGGGGCCACGTCG 4 91 0 ATGCACCAGG 0.764358 -111 TATCGGACAAGTGTCCAATCGATGATGAGA 4 159 1 GTGTCCAATC 0.43024 -43 TGGGCATCACATGCACGACCACCCTGGCCA 8 76 0 ATGCACGACC 0.773273 -225 CGTGCATGTGATGCCCAAGGCGGAGATTCT 8 89 1 ATGCCCAAGG 0.979492 -212 ATATTCCGAGATGCCCAAGCCGCCCCAGCG 8 148 0 ATGCCCAAGC 0.983378 -153 ACGGATAGGTATGCCCGCGGCAAGAACCCC 9 77 0 ATGCCCGCGG 0.853755 -115 TTCTCCCTGAGTTCCCAAGGCGGTGA 10 7 0 GTTCCCAAGG 0.926864 -294 TGGCGCCGGGGTGCCCGACACGTAAGCCGA 11 48 1 GTGCCCGACA 0.887559 -39 ********** Masking position 2 Map Score: 6.68284 Number of sites scoring better than the average of aligned sites = 540 Number in coding regions = 501 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 6 CTTAGAAGAAGCCGTAAAAGCTTCTT 2 7 0 GCCGTAAAAG 0.631796 -66 CTTGAAAAATGACATAAAGGCAGCGCAGTT 3 13 1 GACATAAAGG 0.817446 -89 TTTGAAAAGCGCCTTAAAGGAGTGAATAGG 3 82 1 GCCTTAAAGG 0.803279 -20 TCTCGATGAGGCAATATCGGACAAGTGTCC 4 145 1 GCAATATCGG 0.76005 -57 GGGCGGCTTGGGCATCTCGGAATATCAGAT 8 153 1 GGCATCTCGG 0.84994 -148 CAGTGATTCTGCGATCTCGGCAAGCGTGGT 8 234 0 GCGATCTCGG 0.974815 -67 CGTCCAGTCCTCGATCACGGTGTTGGCCAA 8 264 0 TCGATCACGG 0.838931 -37 GGCGAGCGGAGACATCACGGAGGCAGTCTA 9 151 0 GACATCACGG 0.919545 -41 ACAGAATTGTGCGGTCAAGGCGATAACTCT 10 109 1 GCGGTCAAGG 0.954922 -192 ACCAGATCTAGCGATCTAAGAACATCGGCC 10 147 1 GCGATCTAAG 0.817354 -154 CGCGATAAAGGCTACCGCGCG 12 20 0 GCGATAAAGG 0.962793 -11 ********** Masking position 5 Map Score: 5.17875 Number of sites scoring better than the average of aligned sites = 823 Number in coding regions = 753 Number in noncoding regions = 70 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 7 CATGGATATATCGCAGAAGCGAACGACTGAC 1 176 1 TCGCAGAACG 0.943498 -125 CATAAAGGCAGCGCAGTTCGGCTGCCTTTCT 3 25 1 GCGCAGTTGG 0.902585 -77 CCCCGAACGAGGGCAGAAAGAGAAAGGCAGC 3 45 0 GGGCAGAAGA 0.859722 -57 CGGGTTGACAGCGCAGAAAGGAAGCC 5 15 1 GCGCAGAAGG 0.994652 -16 CTTGCCGAGATCGCAGAATCACTGTTGGCCA 8 240 1 TCGCAGAACA 0.824918 -61 GGATGGTGGTGCGCAAAATGGAACC 9 5 0 GCGCAAAAGG 0.969837 -187 CGGGGCGGGCGCTCAGGATGGTGGTGCGCAA 9 20 0 GCTCAGGAGG 0.863042 -172 CCCGGACCCCGCGCAAAACGTCG 9 179 1 GCGCAAAAGT 0.78216 -13 CGGTCAACCTGCGCCGACCCGCGATCTGTGA 10 60 0 GCGCCGACCG 0.908904 -241 CGCTTGCCCGGCGCAGGTGGAACACGTTCTA 13 20 0 GCGCAGGTGA 0.877011 -145 TCTTCGCGCACACGCGCGACCGGACG 14 24 0 GCGCACACCG 0.885033 -16 ******** ** Masking position 4 Map Score: 5.97859 Number of sites scoring better than the average of aligned sites = 623 Number in coding regions = 577 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 8 GGCAATTTACGGTTGCCGGGTAGAAACTTA 1 114 0 GGTTGCCGGG 0.706674 -187 CACTTTCCTGCATAGTCCGGCAATTTACGG 1 132 0 CATAGTCCGG 0.17011 -169 GATACATGTACCATGCCCGGTTTGTATTGC 1 207 1 CCATGCCCGG 0.338341 -94 CCAGGGGCCACGTCGCGTCGCGGACAGTCC 4 76 0 CGTCGCGTCG 0.789627 -126 GCCCCTGGTGCATCGGTCAGGACGGTGTAG 4 98 1 CATCGGTCAG 0.174766 -104 CCCCGCTCTGCATCGGCGCCGGCGCCGG 6 9 0 CATCGGCGCC 0.362693 -89 GCCCCCACCTCATCGCCCCGCTCTGCATCG 6 24 0 CATCGCCCCG 0.98238 -74 TACCCCCATCCGCTGGCGGGGGAGAGCGGC 6 74 1 CGCTGGCGGG 0.551627 -24 CGCCGCACGACGGCGCCCTGTGCTGGTATC 7 17 0 CGGCGCCCTG 0.756734 -34 CATTGCCCGGCTCCTGGCGG 8 1 1 CATTGCCCGG 0.941431 -300 TGGCGGCCGCTGTCGCCGGGCGCGGCGGGC 8 25 1 TGTCGCCGGG 0.872419 -276 GCGCACCGACAATCGCCTGGCCCTGCGGGT 8 121 0 AATCGCCTGG 0.45566 -180 CAAGCCGCCCCAGCGCACCGACAATCGCCT 8 133 0 CAGCGCACCG 0.487137 -168 GTCGGGCTGACATCGGGGCGGGCGCTCAGG 9 34 0 CATCGGGGCG 0.778357 -158 TGGCATCAGCCGTCGGGCTGACATCGGGGC 9 45 0 CGTCGGGCTG 0.847763 -147 CATACCTATCCGTCGGCTTGTCCGTGTCAA 9 94 1 CGTCGGCTTG 0.771215 -98 AGCTAGGCCCCATCGCGCTGCGGCCGCGTT 9 122 0 CATCGCGCTG 0.874258 -70 TGATGTCTCCGCTCGCCCGGACCCCGCGCA 9 164 1 GCTCGCCCGG 0.877778 -28 TCACCGCCTTGGGAACTCAGG 10 2 1 CACCGCCTTG 0.600269 -299 GGTCAACCTGCGCCGACCCGCGATCTGTGA 10 60 0 CGCCGACCCG 0.535246 -241 GATCTAAGAACATCGGCCGGAAACCTGGTT 10 159 1 CATCGGCCGG 0.980665 -142 CTGAACTTGACATGGCGCGGCCGCAACAAC 10 186 0 CATGGCGCGG 0.637877 -115 TGTGTGAGGGTGGCGCCGGGGTGCCCGACA 11 38 1 TGGCGCCGGG 0.707335 -49 CGTGTTCCACCTGCGCCGGGCAAGCGGCCG 13 25 1 CTGCGCCGGG 0.699164 -140 CGCGAGCGCCGGTCGCTCCGGCAGCGGCAC 13 70 1 GGTCGCTCCG 0.599182 -95 GATCGAATCGCGTCGCCGGGAGCACAGCGT 13 122 1 CGTCGCCGGG 0.989489 -43 GGGAGCACAGCGTCGCACTGCACCAGTGGA 13 139 1 CGTCGCACTG 0.795479 -26 CCGGACGCGGGAACGCCCGG 14 1 0 GAACGCCCGG 0.761787 -39 ********** Masking position 5 Map Score: 23.2236 Number of sites scoring better than the average of aligned sites = 2115 Number in coding regions = 1971 Number in noncoding regions = 144 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 9 AAATATCTCCCCGAACGAGGGCAGAAAGAGA 3 53 0 CCGAACGGGG 0.992097 -49 GGCGCCGATGCAGAGCGGGGCGATGAGGTGG 6 19 1 CAGAGCGGGC 0.932239 -79 GTACCCCCATCCGCTGGCGGGGGAGAGCGGC 6 73 1 CCGCTGGGGG 0.963101 -25 AGCCTATCCGCCGCACGACGGCGCCCTGTGC 7 24 0 CCGCACGCGG 0.964254 -27 GCGCGGCGGGCAGATCTGAGGAGGAGCGCCG 8 44 1 CAGATCTAGG 0.436214 -257 TGCGCGGGGTCCGGGCGAGCGGAGACATCAC 9 163 0 CCGGGCGGCG 0.97815 -29 AAGAATCTCACAGATCGCGGGTCGGCGCAGG 10 53 1 CAGATCGGGG 0.983465 -248 CGCAGGTTGACCGCGCTGGCGCGGGGTCCAT 10 78 1 CCGCGCTGCG 0.950553 -223 TGCAAGACACCAGATCTAGCGATCTAAGAAC 10 139 1 CAGATCTGCG 0.858958 -162 TGGATCCATCCAGATGGCGGCCAAGCGCCGC 10 258 0 CAGATGGGGC 0.657513 -43 AGCCGCAGCTCAGCACGCCGGAA 11 3 0 CAGCACGCGG 0.930523 -84 ATAAAGGCTACCGCGCGTGCGTTTTG 12 6 0 CCGCGCGGCG 0.990661 -25 GCAGCGGCACCCGAACGTGCGCTAGCGTGGT 13 90 1 CCGAACGGCG 0.986123 -75 ACACGCGCGACCGGACGCGGGAACGCCCGG 14 10 0 CCGGACGGGG 0.983716 -30 ******* *** Masking position 1 Map Score: 23.5741 Number of sites scoring better than the average of aligned sites = 302 Number in coding regions = 282 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 10 TTATCTTAACAACGGACATGGATAATGTCA 1 37 0 AACGGACATG 0.989114 -264 TGATCGATAAAACTGACATGGATATATCGC 1 160 1 AACTGACATG 0.945725 -141 AGCAATACAAACCGGGCATGGTACATGTAT 1 208 0 ACCGGGCATG 0.960044 -93 ATGAGGCAATATCGGACAAGTGTCCAATCG 4 150 1 ATCGGACAAG 0.961707 -52 GCCGCGTTGACACGGACAAGCCGACGGATA 9 100 0 CACGGACAAG 0.966114 -92 ********** Masking position 8 Map Score: 1.23082 Number of sites scoring better than the average of aligned sites = 111 Number in coding regions = 100 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 11 ********** No masking Map Score: 5.4594e-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: 5.4594e-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: 5.4594e-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