AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00251_mthe_reg_300.orf -o00251_mthe_300.ace -a/home/amcguire/genomes/ORF_mthe.txt -z/home/amcguire/genomes/mthe.fna -g0.50 -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 = 0.5 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: MTH5 22 ribosomal protein L8 (E.coli L2) MTH44 27 ribosomal protein Sa (E.coli S2) Input sequences: #1 MTH1 170 conserved protein #2 MTH9 46 ribosomal protein L35 (E.coli L29) #3 MTH21 109 ribosomal protein L19 #4 MTH31 30 ribosomal protein L14 #5 MTH34 236 ribosomal protein S18 (E.coli S13) #6 MTH40 58 DNA-dependent RNA polymerase, subunit N #7 MTH42 171 DNA-dependent RNA polymerase, subunit K #8 MTH43 51 enolase #9 MTH47 21 conserved protein #10 MTH48 73 conserved protein #11 MTH52 189 aspartate aminotransferase related protein #12 MTH106 137 tungsten formylmethanofuran dehydrogenase, subunit C homolog #13 MTH171 141 glutamine-fructose-6-phosphate transaminase #14 MTH185 125 conserved protein #15 MTH186 26 unknown #16 MTH187 142 conserved protein #17 MTH189 99 unknown #18 MTH648 65 ribosomal protein L37 #19 MTH649 300 conserved protein #20 MTH709 300 GMP synthetase, subunit A #21 MTH710 102 GMP synthetase, subunit B #22 MTH861 73 conserved protein #23 MTH997 31 carbamoyl-phosphate synthase, large subunit #24 MTH1116 146 glutamate decarboxylase #25 MTH1117 43 phosphoenolpyruvate synthase #26 MTH1119 132 ribosomal protein L10 #27 MTH1570 74 glutamine synthetase #28 MTH1571 300 molybdopterin biosynthesis protein MoeB homolog #29 MTH1601 246 aspartate aminotransferase #30 MTH1667 219 unknown #31 MTH1668 84 conserved protein #32 MTH1669 148 conserved protein #33 MTH1672 41 conserved protein #34 MTH1674 151 conserved protein #35 MTH1692 113 conserved protein #36 MTH1694 207 aspartate aminotransferase related protein #37 MTH1894 34 aspartate aminotransferase homolog #38 MTH1895 170 conserved protein Motif number 1 GTGGATCCGCTCACATTGTATGCTCTGATACGATGTG 1 74 1 TCATGCTCTG 0.900474 -97 CGAAAAAACTTTTTAAGGGGATACCTGAAATTTTTCG 3 44 1 TTAGGACCTG 0.891273 -66 GCGCCTTACCTGGCTAGGCTATCCCGGCACAGGATGT 5 63 0 TCTGGCCCGG 0.887507 -174 GACCGTAGGGTAGCTTGGTCCATCCTCCCAGCCATTG 7 13 1 TCTGGTCCTC 0.853367 -159 AAAAAATTCTTTCTCAGGGATACCCTGTTAAAAAAGG 11 38 0 TTCGGCCCTG 0.912067 -152 CTCATATGGGATGTCCTGATATCTGA 15 2 1 TTAGGTCCTG 0.9329 -25 AGGCCCTTGATGACAGTGACAAATCTGTTAGGAGGGG 16 55 1 TCATGATCTG 0.722276 -88 GTGAAGGGTTTACCATGGCCGGACCTTCAGTGTGCAT 17 30 1 TCAGGACCTT 0.833685 -70 TTCAAATCCATTCCAGGGTCCGCCCTGGGATCCCCCC 19 150 0 TCAGGCCCTG 0.994311 -151 ATAAGTTTTCTTGCACTGCAGTACCTCTTCAAATCCA 19 177 0 TCATGACCTC 0.824762 -124 AAGTACTTTTTCCTCGGGTAGACCCTTTCATCCATTT 24 90 0 TTCGGCCCTT 0.508576 -57 CCTCACCCAGTACACCCTCGCCATAGACA 25 3 1 TCCAGCCCTC 0.68555 -41 GAAAAGCAGATGTCTGGGGCGGTCCTCTGGAGCCATT 28 127 0 TCTGGTCCTC 0.853369 -174 AGCATGAGCCTATCACTGGAGATCCTGTGGGAAAGAT 28 177 0 TCATGTCCTG 0.964329 -124 TATCCCCAGTTTCCAGGGGACATTCTGATGGCTATTA 30 35 0 TCAGGTTCTG 0.9329 -185 AAACTGGGGATATCAAGGAATCTCCTGGAAATATAAT 30 60 1 TCAGGTCCTG 0.9884 -160 ACATAAAGGTTTGCAATGATCACCCTGCCGGTTTTCG 35 56 1 TCATGCCCTG 0.982286 -58 CCTGATTTTATTACAGAGGCTCCTCTGGTAAACAAAG 36 53 1 TCAAGCTCTG 0.768101 -155 TTCTTCTCTTTCGCATGGATACTCCTGTGCTGATGTG 36 176 1 TCAGGTCCTG 0.9884 -32 TTCTTGATGATGACATTGTATTCCCGGAGTTCCATGA 38 129 0 TCATGCCCGG 0.915407 -42 * ** ** ***** Masking position 1 Map Score: 20.4677 Number of sites scoring better than the average of aligned sites = 1176 Number in coding regions = 1131 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 2 AGCTTTGCTCCTCCTGGGTTCAAATCCCAGTCC 5 119 1 CTCCTGGCAA 0.956451 -118 GAACTCGGGTCTCCAGCGTTCCGGTGCTGACCA 7 84 0 CTCCAGGCCG 0.982173 -88 TTTTTATTAACTCCAGTGGACTACATGATAATA 11 127 1 CTCCAGGCTA 0.930519 -63 TCATAAAAACCCCCAGCTTCCAAACTATTTTTA 14 82 0 CCCCAGTCAA 0.802415 -44 ATGGCCGGACCTTCAGTGTGCATTCAACCTCCC 17 44 1 CTTCAGGCAT 0.87563 -56 ATCTGCTACTCTCCAGATATGATTATTCAGGAT 20 61 1 CTCCAGTGAT 0.761168 -240 GGGTGGGTACCTTCAGGTCCCAGT 21 2 0 CTTCAGTCAG 0.901189 -101 AAATAATCCTCCTGTGATCCTGTGAGAATAA 26 112 0 CTCCTGGCCT 0.886822 -21 TTCAGAATGGCTCCAGAGGACCGCCCCAGACAT 28 122 1 CTCCAGGCCG 0.982173 -179 GGGAAAGATTCTTCAGATCAGTGAAAAGCAGAT 28 153 0 CTTCAGTGTG 0.419995 -148 TTTGGGTTTTCTCCTGGTGGGAGCTGGAGCTCA 29 43 1 CTCCTGTGAG 0.813266 -204 CTGAATCAGGCTCCTGAGCTCCAGCTCCCACCA 29 57 0 CTCCTGGCCA 0.937918 -190 TGGATCGCGGCTTCAGGGACCTGAATCAGGCTC 29 77 0 CTTCAGGCTG 0.854426 -170 TTAATCACCTCTTCAGGGCCCCATGACTGGCTG 29 114 1 CTTCAGGCCA 0.903268 -133 AAAACCTCCAGATTAAAGTGGATTTCAT 29 229 0 CTCCAGTAAG 0.769515 -18 TCCTTGATATCCCCAGTTTCCAGGGGACATTCT 30 46 0 CCCCAGTCAG 0.867204 -174 TTGAAATCCTCCAGCTTGAAAAATAACTGCA 32 128 0 CTCCAGTAAA 0.674934 -21 CGCATGGATACTCCTGTGCTGATGTGATAAA 36 187 1 CTCCTGGGAT 0.770825 -21 GAGAATCTTCTGAGATCAAAAATAAATAA 37 7 1 CTTCTGGCAA 0.856852 -28 ACTTAAACTGCTCCATGGGGCAATACCATGTGA 38 75 0 CTCCATGCAA 0.675736 -96 ****** * *** Masking position 4 Map Score: 17.8551 Number of sites scoring better than the average of aligned sites = 721 Number in coding regions = 662 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269 Motif number 3 GGAGGACTGGAAGGGGCATATTTTCCAGT 3 7 1 CGGAAGGGCT 0.901353 -103 TTAACCGACGCCGGGACTGGGATTTGAACCCAG 5 132 0 CGGGATGGGT 0.933442 -105 GAGTGAATTCGCGGGACGGGGGTTTGCGAATTC 5 197 0 GGGGAGGGGT 0.995678 -40 GACTTTTCAACTGGAACGGGGATGGTCAGCACC 7 62 1 CGGAAGGGGT 0.980717 -110 TCCGGTTCAGTGTGATGGGGTGAAGGGTTTAC 17 10 1 GGTGAGGGGG 0.909601 -90 ATGCATCTCTCATGGATGGGGGGATCCCAGGGC 19 133 1 CTGGAGGGGG 0.975371 -168 CATCTTCCTGCGGGGAAGGAGTGTTTGATACTC 20 105 0 CGGGAGGAGG 0.916397 -196 TAATGTTAAGGATGGACGGTGTTCTGACCCGTG 21 38 0 GTGGAGGTGT 0.883133 -65 TATTAGATGAGAGGAATGGGGATAAA 23 16 1 GGGAAGGGGT 0.980717 -16 GGAAGACGGTTGCAAGGGCCGAGCAGAGACT 24 9 1 GTGCAGGGCG 0.629009 -138 CAGTTCGGTTCAGGGAAGGGGTTTTATTATCTC 28 80 0 CGGGAGGGGT 0.995678 -221 TTTTTACAGAGTTAGAAGGGGATTATATTTCCA 30 85 0 GTAGAGGGGT 0.79732 -135 TACAGTACCAGCGGGAGGGGGTTATATAAACAG 30 153 1 GGGGAGGGGT 0.995678 -67 ACCACGAAAACCGGCAGGGTGATCATTGCAAAC 35 64 0 CGGCAGGTGT 0.874159 -50 * **** **** * Masking position 6 Map Score: 17.9203 Number of sites scoring better than the average of aligned sites = 322 Number in coding regions = 301 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 4 TAAATCACCTCAGTAACTTTTAGTA 4 16 0 AATCCCTCAA 0.864051 -15 AGGAGGAGCAAAGCTCCACAAGATTTCCAGTCT 5 101 0 AAGCCCACAA 0.748769 -136 TAAAACACCTCATAATAAACTCTAG 8 37 0 AAACCCTCAA 0.971322 -15 AAGGAATTATAAACCCCAGAAAACAGAAAAA 11 9 0 AAACCCAGAA 0.74466 -181 ATTTGAGTATGAAATCCTGATCAACTCTCCAAT 13 28 1 GAAACCTGAA 0.517522 -114 AGCTTCATGAGAACACTTCAAGAGGAATTTAA 14 10 0 GAACCTTCAA 0.819202 -116 CAGAGCAGTTGAACCCCTCATAAAGGCT 16 125 1 GAACCCTCAA 0.979844 -18 TGACTCATTTAAACTCTTCTGCAAGTATATCTA 19 67 1 AAACCTTCTA 0.637846 -234 GTGAACACCTCAAGATTATAATTAT 22 3 1 GAACCCTCAA 0.979844 -71 GGCCGCACAGGAACTCCTCTAAACTATTTTTGG 24 51 1 GAACCCTCTA 0.96444 -96 CCTACAGGATGACCCCCTCATGATTTATATCAA 28 237 1 GACCCCTCAA 0.933821 -64 TCCATCAGTTAATCACCTCTTCAGGGCCCCATG 29 106 1 AATCCCTCTA 0.780023 -141 TACAGGTTATGAAATCCACTTTAATCTGGAGGT 29 221 1 GAAACCACTA 0.683878 -26 TCGGCTCCATAAAAACCACAACAATAAACTTCC 31 21 1 AAAACCACAA 0.729844 -64 CCTTTATGTCAACCACCACACCACGAAAACCGG 35 32 0 AACCCCACAA 0.845796 -82 CGGAACACCTTTACATCAACCACTA 35 99 0 GAACCCTTTA 0.605463 -15 AACCTCAATTAAACTCCACTTTAGGGTTTCTTA 36 118 0 AAACCCACTA 0.913364 -90 **** ***** * Masking position 2 Map Score: 13.4769 Number of sites scoring better than the average of aligned sites = 498 Number in coding regions = 464 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 5 CATTGTGGAAATATTTATAAATAAATCCGGAC 1 137 1 ATATTATAAT 0.684667 -34 GACGGCAGCAATACTTAAATAGATGTCATAAT 5 16 1 ATATTAAATG 0.408019 -221 ATCAATCGATAACTTTATATATTTTTATTTTA 6 11 1 AACTTATATT 0.521259 -48 GACCAGGTAGATAATTATATATTTTAAGGAGA 12 39 0 ATATTATATT 0.938066 -99 CAACTCTCCAATACTTATATAGGTGTAAATTC 13 49 1 ATATTATATG 0.770697 -93 CAGTGCAAGAAAACTTATATATTAGTAGAATA 19 196 1 AAATTATATT 0.832014 -105 TAGCCGGATTATATTTAAATCTAACTAACGAG 19 261 0 ATATTAAATT 0.718278 -40 GCTATCCTGAATAATCATATCTGGAGAGTAGC 20 65 0 ATATCATATT 0.771164 -236 ATTTTACCGAATAATTAAATATTATGGAGGCA 20 248 0 ATATTAAATT 0.730497 -53 TTCTGAAAAGCTATTTATATTTTACCGAATAA 20 266 0 CTATTATATT 0.903697 -35 CCTCAAGATTATAATTATAAATTACTGATCCA 22 18 1 ATATTATAAT 0.685386 -56 TACAGTAAGAAAAGTTATATGTGGATCAGTAA 22 39 0 AAATTATATT 0.832691 -35 CCCTGCTAATTATATGTATCCTTATAT 26 6 1 CTATTATATT 0.907263 -127 AATTATATGTATCCTTATATTTTCAGGTTATC 26 18 1 ATCTTATATT 0.77116 -115 AACTTTATCCACATTTATATATCATTCTTTGG 29 16 1 ACATTATATT 0.657494 -231 AAAACACCACCTACTTATATATACCTGATCTC 34 12 1 CTATTATATT 0.907101 -140 TACCTGATCTCAAATTATATTTGGATATATTT 34 33 1 CAATTATATT 0.760083 -119 ACCGGCACACCTAATCATATATATCT 35 5 0 CTATCATATT 0.681929 -109 *** ****** * Masking position 5 Map Score: 9.90267 Number of sites scoring better than the average of aligned sites = 35 Number in coding regions = 6 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 6 CCAAGAAAAACATTAAAATAGAGGTTCTTG 7 146 0 CATTAAAATA 0.749068 -26 AAAATATTCTCCTTAAAATATATAATTATC 12 32 1 CCTTAAAATA 0.968204 -106 AAATGGGAAACCTTAAATTACAGCATGGAA 12 78 1 CCTTAAATTA 0.827593 -60 ATCATTACAGCCTTAAAATATTATCCCATG 14 53 0 CCTTAAAATA 0.968204 -73 TTCTAATCCTCCTTAAAATCAGTTAATCTG 18 45 0 CCTTAAAATC 0.937044 -21 TAATAGATAACCTGAAAATATAAGGATACA 26 25 0 CCTGAAAATA 0.96171 -108 ACTTTTTTATCCTTAAAACAGAAAAGATGA 28 11 1 CCTTAAAACA 0.876764 -290 GTAAATCCGACCTGAAAATCAGCCAGTCAT 29 136 0 CCTGAAAATC 0.924682 -111 CAAGGAATCTCCTGGAAATATAATCCCCTT 30 73 1 CCTGGAAATA 0.854404 -147 ********** Masking position 6 Map Score: 7.28978 Number of sites scoring better than the average of aligned sites = 52 Number in coding regions = 37 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 7 CGAAAAATTTCAGGTATCCCCTTAAAAAGTT 3 50 0 CGGTATCCCC 0.8375 -60 ACATCCTGTGCCGGGATAGCCTAGCCAGGTA 5 63 1 CGGGATAGCC 0.940677 -174 ATTCGATTTGATGGGACCGCCGAGATTTGAA 7 114 0 AGGGACCGCC 0.965175 -58 AATTCTTTCTCAGGGATACCCTGTTAAAAAA 11 40 0 CGGGATACCC 0.940675 -150 CTCATATGGGATGTCCTGATATCTGA 15 6 1 AGGGATGTCC 0.791601 -21 CTGTTCAACAGCGGGTTCCCCTATTTCAGAT 16 17 0 GGGGTTCCCC 0.874311 -126 TTCAACTGCTCTGGGATCTCCAATGTTACCC 16 107 0 CGGGATCTCC 0.982381 -36 AGGGTCCGCCCTGGGATCCCCCCATCCATGA 19 142 0 CGGGATCCCC 0.986182 -159 AAATCCATTCCAGGGTCCGCCCTGGGATCCC 19 153 0 CGGGTCCGCC 0.944177 -148 GAATGGCTCCAGAGGACCGCCCCAGACATCT 28 126 1 AAGGACCGCC 0.777325 -175 AATCTTTCCCACAGGATCTCCAGTGATAGGC 28 176 1 AAGGATCTCC 0.787747 -125 TAAATCATGAGGGGGTCATCCTGTAGGACCA 28 233 0 GGGGTCATCC 0.491073 -68 TGGGGATATCAAGGAATCTCCTGGAAATATA 30 64 1 AGGAATCTCC 0.677908 -156 * ********* Masking position 10 Map Score: 9.07666 Number of sites scoring better than the average of aligned sites = 578 Number in coding regions = 531 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 8 GGCATATTTTCCAGTCCAGCGAAAAAACTTTTTA 3 25 1 CCAGACGAAA 0.923429 -85 ATTATAAACCCCAGAAAACAGAAAAA 11 3 0 CCAGAAGAAA 0.963991 -187 CCTGGTCTTTCCAGAAATGGGAAACCTTAAATTA 12 64 1 CCAGTGGAAA 0.981457 -74 GGGGGCCGCAGCAGCCCTGGGTAACATTGGAGAT 16 89 1 GCAGTGGTAA 0.8585 -54 TGATGGTAAAGCAGATTAAGGAACAGACTGCAGA 19 32 0 GCAGAGGAAC 0.864856 -269 AAGAGGTACTGCAGTGCAAGAAAACTTATATATT 19 185 1 GCAGAGAAAA 0.727875 -116 AGCAGCCATACCAGAACATAGAAAGCGACAACTG 20 177 1 CCAGAAGAAA 0.963991 -124 AATATATAAACCAGTAGAAGGAAAGTTACTTCCG 27 17 1 CCAGAGGAAA 0.986462 -58 TTTATTATCTCCAATTTAAAGAAACGTGATTTTT 28 57 0 CCAAAAGAAA 0.657636 -244 TGAGTCCCGGCCAGCCATCAGTAAATCCGACCTG 29 152 0 CCAGTAGTAA 0.813331 -95 TATATTTATGGCAGGTATAGGAAAAATTTTTATA 34 58 1 GCAGTGGAAA 0.964386 -94 CTGTTTTTAGCCAGCTGTAGGATAATGTGGCCTG 36 23 1 CCAGTGGATA 0.859761 -185 **** * ***** Masking position 3 Map Score: 6.24276 Number of sites scoring better than the average of aligned sites = 163 Number in coding regions = 149 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 9 TTCACTCTTACTGGAGGTTAATGA 5 223 1 CTGAGGTTAA 0.875062 -14 AGCCGGATCACTGCTGGAAAACAAAAAATTC 11 66 0 CTGTGGAAAA 0.816066 -124 GAATTAACTTCTGGAGGATAAATC 11 176 1 CTGAGGATAA 0.977988 -14 CTGGAAAGACCAGGTAGATAATTATATATTT 12 47 0 CAGTAGATAA 0.707069 -91 AATAGATGTCCTGCAAGATAATAAATCAATC 21 71 1 CTGAAGATAA 0.935738 -32 AGAATATTTACAGTAAGAAAAGTTATATGTG 22 48 0 CAGAAGAAAA 0.707069 -26 CACAGGATCACAGGAGGATTATTT 26 119 1 CAGAGGATTA 0.786052 -14 GATATGGATCTGAAGGATAAGGCCTAATTC 33 10 1 CTGAGGATAA 0.977988 -32 TTTTAGCCAGCTGTAGGATAATGTGGCCTGA 36 27 1 CTGAGGATAA 0.977988 -181 *** ******* Masking position 11 Map Score: 5.81718 Number of sites scoring better than the average of aligned sites = 113 Number in coding regions = 98 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 10 AAATTGTATGGTATCCATATTTAAACTTTC 1 22 0 GTATCCATAT 0.933082 -149 ATATATGGACAGATTCATATCAGTGAATAA 2 12 1 AGATTCATAT 0.726552 -35 TATAAATTACTGATCCACATATAACTTTTC 22 33 1 TGATCCACAT 0.905523 -41 GAAAATATAAGGATACATATAATTAGCAGG 26 12 0 GGATACATAT 0.846744 -121 GGGATAACTTTATCCACATTTATATATCA 29 10 1 TTATCCACAT 0.758526 -237 ACTTTAACCAGTATCCACATATTAGGTTAC 30 126 1 GTATCCACAT 0.920094 -94 CTTATCCTTCAGATCCATATC 33 2 0 AGATCCATAT 0.920687 -40 ATATTAATTAGGATTCATATGTTTACTACC 34 94 0 GGATTCATAT 0.906912 -58 AGAAATAACGGGATCCATATTAATTAGGAT 34 110 0 GGATCCATAT 0.97706 -42 ********** Masking position 4 Map Score: 4.61463 Number of sites scoring better than the average of aligned sites = 80 Number in coding regions = 67 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 11 TTGCACCTACGACTCTTATGAAGAATTCGCAAA 5 175 1 GCTTTAGAAG 0.93375 -62 CATCCTCCCAGCCATTGAAGAAGTTTCCGGACT 7 33 1 GCATGAGAAG 0.741865 -139 TCAGTCTAGAGTTTATTATGAGGTGTTTTA 8 32 1 GTTTTAGAGG 0.945546 -20 TGAATCCCCAGCCTGTGAAGAAGCCGGATCACT 11 85 0 GCTTGAGAAG 0.957661 -105 GGAAGCTGGGGGTTTTTATGATGTCTTCATATT 14 94 1 GTTTTAGATG 0.727904 -32 ACAGTGACAAATCTGTTAGGAGGGGGGCCGCAG 16 67 1 ACTTTAGAGG 0.840338 -76 AGCCTTTATGAGGGGTTCAACTG 16 130 0 ACCTTAGAGG 0.777279 -13 CAGATTAACTGATTTTAAGGAGGATTAGAAC 18 45 1 GTTTAAGAGG 0.756797 -21 ACCCTGGAATGGATTTGAAGAGGTACTGCAGTG 19 168 1 GATTGAGAGG 0.873013 -133 GTTCCTGTGCGGCCTTGAGGAGGAGTCTCTGCT 24 32 0 GCCTGAGAGG 0.981195 -115 CATTGTACCTGTCTATGGCGAGGGTGTACTGGG 25 16 0 GCTTGGGAGG 0.914358 -28 CCAGTCATGGGGCCCTGAAGAGGTGATTAACTG 29 111 0 GCCTGAGAGG 0.981195 -136 ACATTCTGATGGCTATTACGAAGCCCTTTAAGT 30 20 0 GCTTTAGAAG 0.93375 -200 GGTAAACAAAGTTTATTAAGAGGTTTGTTTAAT 36 79 1 GTTTTAGAGG 0.945546 -129 ACCTTCTCGGGTTCTTGATGATGACATTGTATT 38 144 0 GTCTGAGATG 0.740015 -27 * ** *** **** Masking position 11 Map Score: 14.5841 Number of sites scoring better than the average of aligned sites = 640 Number in coding regions = 613 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 12 TACCTGAAATTTTTCGGGTTTATCAGCAAA 3 65 1 TTTTCGGGTT 0.960134 -45 TTTTTCTGTTTTCTGGGGTTTATAATTCCT 11 11 1 TTCTGGGGTT 0.818355 -179 AATATCATTCTTCTCGTGTTGAATTAACTT 11 156 1 TTCTCGTGTT 0.960134 -34 TATCCTTATATTTTCAGGTTATCTATTAAC 26 27 1 TTTTCAGGTT 0.728956 -106 TCTTTGGGTTTTCTCCTGGTGGGAGCTGGA 29 41 1 TTCTCCTGGT 0.766784 -206 TGATAAACAATTTTCGTATTAAACTGGCCC 32 21 1 TTTTCGTATT 0.647132 -128 GGTGTGCCGGTTTTCGTGGTGTGGTGGTTG 35 26 1 TTTTCGTGGT 0.939136 -88 ACCCTGCCGGTTTTCGTGGTTGTAGTGGTT 35 77 1 TTTTCGTGGT 0.939136 -37 ATCAACCTTCTCGGGTTCTTGATGATG 38 154 0 TTCTCGGGTT 0.968756 -17 ********** Masking position 4 Map Score: 3.83184 Number of sites scoring better than the average of aligned sites = 44 Number in coding regions = 36 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 13 GTCCATCCTCCCAGCCATTGAAGAAGTTTC 7 30 1 CCAGCCATTG 0.959018 -142 CCTGGTCTTTCCAGAAATGGGAAACCTTAA 12 64 1 CCAGAAATGG 0.851944 -74 CACTGAAGGTCCGGCCATGGTAAACCCTTC 17 32 0 CCGGCCATGG 0.98554 -68 AAGTTAAGCTCATGCCATGGAGGCATAACC 27 54 1 CATGCCATGG 0.876936 -21 TGAAAATCAGCCAGTCATGGGGCCCTGAAG 29 124 0 CCAGTCATGG 0.983284 -123 TAAAAACAGTCCAGTCATGGT 36 2 0 CCAGTCATGG 0.983284 -206 ********** Masking position 7 Map Score: 1.83901 Number of sites scoring better than the average of aligned sites = 99 Number in coding regions = 96 Number in noncoding regions = 3 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467 Motif number 14 TTTCGGGTTTATCAGCAAATGCTGAATACAAGGA 3 76 1 ATCAGAAATG 0.659349 -34 CTCCAAGAAAAACATTAAAATAGAGGTTCTTGGA 7 144 0 AACATAAAGA 0.788771 -28 AGAATATTTTATCATTAAATGAGAATTGTAA 12 8 0 ATCATAAAGA 0.837151 -130 AAATCAGTTAATCTGTAAAGTTGATCCACCCTTC 18 26 0 ATCTGAAAGA 0.72953 -40 GCTTTTCAGAATCAGAAGAGGAGA 20 287 1 ATCAGAGAGA 0.909199 -14 TTATCCTTAAAACAGAAAAGATGAATTCTTCTGA 28 17 1 AACAGAAAGA 0.944183 -284 ATTATGCAAGAACATGAAAGAGGGTTTGA 28 282 1 AACATAAAGG 0.812231 -19 CCGGCCAGCCATCAGTAAATCCGACCTGAAAATC 29 146 0 ATCAGAAAGA 0.958826 -101 GGGTTATATAAACAGAAAAACGGAATGTCTGTGT 30 171 1 AACAGAAAGA 0.944183 -49 GATCAGGATAGCTGGGACAATCGGG 30 205 0 ATCAGATAGG 0.882335 -15 AACAGCAGATTCGGCTCCATAAAA 31 1 1 AACAGAGAGG 0.893906 -84 AAATTTGATGATCAGCATACCCGGTATGCAGTTA 32 102 1 ATCAGATAGG 0.882335 -47 ***** *** ** Masking position 7 Map Score: 5.80551 Number of sites scoring better than the average of aligned sites = 153 Number in coding regions = 127 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 15 ATCTGTCCGGATTTATTTATAAATATTTCC 1 143 0 ATTTATTTAT 0.613361 -28 CGATAACTTTATATATTTTTATTTTATAAA 6 17 1 ATATATTTTT 0.773788 -42 CCAGCTTCCAAACTATTTTTATCATTACAG 14 73 0 AACTATTTTT 0.798761 -53 GATTCTGAAAAGCTATTTATATTTTACCGA 20 270 0 AGCTATTTAT 0.603739 -31 ATAATAAATCAATCATTTTTATTCG 21 88 1 AATCATTTTT 0.411844 -15 AACTCCTCTAAACTATTTTTGGGCGTAAAA 24 62 1 AACTATTTTT 0.798761 -85 AGACCCTTTCATCCATTTTTACGCCCAAAA 24 78 0 ATCCATTTTT 0.752372 -69 CTACTGGTTTATATATTTTTTGT 27 4 0 ATATATTTTT 0.773788 -71 CATAACCTGTATCTATTTTTAATCTGTCCA 29 202 0 ATCTATTTTT 0.897606 -45 CCCGGTATGCAGTTATTTTTCAAGCTGGAG 32 121 1 AGTTATTTTT 0.685652 -28 TTATATTTGGATATATTTATGGCAGGTATA 34 47 1 ATATATTTAT 0.548718 -105 CGCCTTTATTTATTTTTGATCTCAGAA 37 18 0 ATTTATTTTT 0.816918 -17 ********** Masking position 5 Map Score: 2.56084 Number of sites scoring better than the average of aligned sites = 85 Number in coding regions = 26 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392