AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00220_mthe_reg_300.orf -o00220_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: MTH892 21 ATP-dependent protease LA related protein Input sequences: #1 MTH174 169 sensory transduction histidine kinase #2 MTH175 128 conserved protein #3 MTH176 168 tRNA-guanine transglycosylase #4 MTH179 117 unknown #5 MTH181 49 unknown #6 MTH182 36 glutamate N-acetyltransferase #7 MTH243 231 conserved protein #8 MTH248 195 conserved protein #9 MTH249 64 conserved protein #10 MTH250 23 tRNA intron endonuclease #11 MTH251 54 tryptophanyl-tRNA synthetase #12 MTH252 22 conserved protein #13 MTH253 75 threonine synthase #14 MTH254 206 histone HMtB #15 MTH255 269 ribosomal protein L7a #16 MTH256 49 ribosomal protein S28 #17 MTH261 24 translation initiation factor eIF-2, gamma subunit #18 MTH262 24 conserved protein #19 MTH846 170 N-acetyl-gamma-glutamyl-phosphate reductase #20 MTH890 145 conserved protein #21 MTH891 59 conserved protein #22 MTH893 60 integrase-recombinase protein #23 MTH894 179 conserved protein #24 MTH895 51 conserved protein #25 MTH1254 135 argininosuccinate synthase #26 MTH1337 81 N-acetylornithine aminotransferase #27 MTH1445 64 glycinamide ribonucleotide synthetase Motif number 1 GATGTAAATCGGGGGGTGATGTAGGTGGGGGTTTTCCC 1 142 1 GGGTGTGGGG 0.589665 -28 CAGTGTTTCTGAGGCATGGATTATGTGGGAGGATTTTTA 3 32 1 GCATGTGGGG 0.963025 -137 TACACTGATCTGAGCATGTAGTATCTGGTGGTAGCCACT 3 109 1 TCATGTCGGT 0.807553 -60 GTTAATATCTTTACCCCTCAGTTTGAGGGATGAGACCGT 4 19 0 TCCCTTGGGG 0.947511 -99 ATGAGAATAGTTCTCAATCAGGTGCAGGGAGAGAGCA 4 91 1 TCAATGCGGG 0.525513 -27 GAAGAGATTCTTTGCCTGTAATGCCGGGGTGATAAACTG 7 76 0 TCCTGTCGGG 0.991392 -156 GAGGGGCCCCGGGTCCCGTGATGCCCGGGAGGCCTTCCG 8 55 1 GCCCGTCGGG 0.95218 -141 TCCGCTGGAGGGGTGCTGGTTTTCCAGGGAACTCTATCT 8 110 1 GGCTGTCGGG 0.792791 -86 CCTGAAGGATTTCCCCTGGAGGGTCAGGGTTTGAGATAA 8 162 1 TCCTGGCGGG 0.952969 -34 CTCAACCAGCACTCACGGGAGGT 10 2 1 TCCAGTCGGA 0.901826 -22 CTTATCAATATGTACCTGAATTAACCAGGGAAATTAAAC 13 16 0 TCCTGTCAGG 0.799503 -60 GAGAAAGGTATCTTCAAGAATTCAGGGGG 14 1 0 TCAAGTGGGG 0.97701 -206 CAGCAGTATATCCACGAGTGCTTGGAGGGTGAGAAATTA 14 80 0 TCGAGTGGGG 0.959416 -127 TAATTTCTATTAATCCTTGTTTTCCTGGGCGTCTTACTG 15 78 1 TCCTTTCGGG 0.960765 -192 AAGTTATGGATTAACATGAAGTGGGTGAGTACCTTTATA 15 190 0 TCATGTGGAG 0.728191 -80 GGGTCAGTGATGGACATTATATGGGTGGGAGGCCCCACC 19 80 1 TCATTTGGGG 0.942698 -91 CTCTGGATAGTCTGCGAGGGTATGGTGGGGCCTCCCACC 19 103 0 TCGAGAGGGG 0.60503 -68 AGGTCAGTGATGGACATTATATAGGTGGGTATAG 19 147 1 TCATTTGGGG 0.942698 -24 GATATAGATATTATCAAGTTATTAAAGGGCCAGAT 20 121 1 TCAAGTAGGG 0.820195 -25 GTAAACCCTCCTTTTGAGGAATGACTGGTT 21 40 0 TCCCTTGGGA 0.723871 -20 GAGTGCATGATCCGCAAGGTTTAAGTGGATATTT 22 37 1 TCAAGTGGGA 0.860239 -24 TCTGAAAAATTAAGCCCGCCCTTGAAGGAAGAATTCAGG 23 65 0 TCCCGTAGGA 0.569613 -115 GTTAACAGGTTCAACCTGGAATTTGAGGTGAA 24 30 1 TCCTGTGGGT 0.927882 -22 GAAAAATCCGTATACCTGCGGCAGGTGGGACATACACTT 25 33 1 TCCTGCGGGG 0.940476 -103 * **** * * *** Masking position 17 Map Score: 27.089 Number of sites scoring better than the average of aligned sites = 977 Number in coding regions = 924 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 2 CCGACTCTGATTCAGGGGTAATGGCAAAATT 2 80 1 TTCAGGGGAA 0.95885 -49 TGATGAGGATTCCATGAGAATAGTTCTCAAT 4 78 1 TCCATGAGAT 0.748341 -40 TGTAACCGGAATCATGGGCCATCCCCTGGGC 7 28 0 ATCATGGGCA 0.751889 -204 TATTGTAAGTACCATGAGAAAAAAAATCAGA 7 146 0 ACCATGAGAA 0.748341 -86 ATATTTATTTACCATCAGCGATAAATATTGT 7 174 1 ACCATCAGGA 0.264152 -58 TTACCTATAATCCAGGGGAGAGTGTGAC 7 214 1 TCCAGGGGGA 0.950285 -18 GAGTGTTGAGTTCCTGAGGAATATTATACCT 8 23 1 TTCCTGAGAA 0.563563 -173 GCCTTCCGTGTTCCTGGGGAATATTCCGCTG 8 86 1 TTCCTGGGAA 0.943133 -110 CCAGCACCCCTCCAGCGGAATATTCCCCAGG 8 98 0 TCCAGCGGAT 0.627455 -98 CAGATAGAGTTCCCTGGAAAACCAGCACCCC 8 119 0 TCCCTGGAAA 0.910529 -77 ACCCTGACCCTCCAGGGGAAATCCTTCAGGG 8 161 0 TCCAGGGGAA 0.971878 -35 GCTGCAGTCATCCATGGAAGACCCCTTTAAC 9 13 1 TCCATGGAGA 0.886699 -52 CCGTTTAATTTCCCTGGTTAATTCAGGTACA 13 14 1 TCCCTGGTAA 0.678643 -62 TTTTCTATTTTTCATCGGACAACTTGAAGTT 14 50 1 TTCATCGGCA 0.74776 -157 CATCGGTTGGTTCATGGGGCACCTTCAACCC 14 118 0 TTCATGGGCA 0.931371 -89 AATCCTTGTTTTCCTGGGCGTCTTACTGGAT 15 89 1 TTCCTGGGGT 0.779984 -181 TTACTGGATGATCCGGGATAATTCAGAATAC 15 111 1 ATCCGGGAAA 0.471905 -159 GATACAGATTTTCATGAGAAATCGTATTCTG 15 134 0 TTCATGAGAA 0.899338 -136 TTTTCTACCATCCATCGGTAATTACACCAAT 15 244 0 TCCATCGGAA 0.928205 -26 CCTTTAACTGTCCATGGGGATATCTTCCCC 19 10 0 TCCATGGGAT 0.929538 -161 TTATAAGTATTTCATGGACAACCTTTAACTG 19 31 0 TTCATGGAAA 0.905126 -140 TTTTAACAGATTCATGGAGGAAAG 20 4 0 TTCATGGAGA 0.84064 -142 GCTGGCCCACTTCCGGAAAAATCCGTATACC 25 18 1 TTCCGGAAAA 0.473878 -118 ******** ** Masking position 3 Map Score: 24.3925 Number of sites scoring better than the average of aligned sites = 1337 Number in coding regions = 1249 Number in noncoding regions = 88 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 3 ATGAAATTCTGGATGGAAACTGATTGAACAGAAT 1 19 0 GAGAACTGAT 0.986854 -151 TGATGAGCAGGCACCGACTCTGATTCAGGGGTAA 2 67 1 GAGATCTGAT 0.960159 -62 GTGTATATCCACGATGATACTGATTAATATGTAA 3 80 0 AGGAACTGAT 0.893104 -89 GTATCATCGTGGATATACACTGATCTGAGCATGT 3 94 1 GATAACTGAT 0.979123 -75 GCAGAATGATACTGATTAACAGGTAC 3 153 0 AAGAACTGAT 0.937282 -16 GTAATGCCGGGGTGATAAACTGATAACTGGAAAA 7 64 0 GTTAACTGAT 0.868409 -168 GCACCGGTCAGTATAGAATCTGATTTTTTTTCTC 7 128 1 GAGATCTGAT 0.960159 -104 CCAAGCACTCGTGGATATACTGCTGGGTTGAAGG 14 94 1 GGTAACTGCT 0.805275 -113 TATATCTTATATGACGATACTGATATATAAAATA 20 93 0 AGGAACTGAT 0.893102 -53 CCCACCTGCCGCAGGTATACGGATTTTTCCGGAA 25 28 0 GATAACGGAT 0.880914 -108 GCGGCAGGTGGGACATACACTTATAACTTATCCC 25 50 1 GATAACTTAT 0.755449 -86 CTTATAAATGGAATCATTCTGATACGCTCATGT 25 113 0 GACATCTGAT 0.822478 -23 TATTAATGTTGAACCTAAACTGATAATAAATATT 26 28 0 GATAACTGAT 0.979123 -54 * * ** ****** Masking position 7 Map Score: 13.764 Number of sites scoring better than the average of aligned sites = 79 Number in coding regions = 64 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 4 CATACATCAGATATAAATTGATGGAATTGATGA 1 49 0 ATAAAATTAG 0.93511 -121 CTGATGGTAAATAAATATTGTAAGTACCATGAG 7 159 0 ATAATATTTA 0.836106 -73 ACCATCAGCGATAAATATTGTTGCCATAGGTTA 7 184 1 ATAATATTTG 0.935113 -48 GCTTCATCACATATAAAGTTTTGCTGCCAATTA 15 43 0 ATAAAAGTTG 0.677652 -227 ACAAGGATTAATAGAAATTAAAGCTTCATCACA 15 65 0 ATAAAATTAG 0.934993 -205 CCTTTATTAAATTGAAATTGAAAGGCTTTTAGT 16 20 0 ATTAAATTAA 0.488933 -30 CATGAAATACTTATAAATTTTGGTGGCCACGAC 19 46 1 TTAAAATTTG 0.586355 -125 TTATGATAACATAGATATTTAAATATAGCCCAG 20 45 1 ATAATATTAA 0.836152 -101 CATATAAGATATAGATATTATCAAGTTATTAAA 20 114 1 ATAATATTTA 0.836161 -32 TCAATATATTCAAATTTATGGATATAAAGG 23 160 0 ATTAAATTAG 0.730044 -20 TTACAGCACTATAGATATTAATATGGGATAAGT 25 75 0 ATAATATTAA 0.836162 -61 TAAACTGATAATAAATATTTATGTTGAGGTGGT 26 14 0 ATAATATTAG 0.935113 -68 ACAGGTCCCCATATAAATTTTTGGTGATATC 26 61 1 ATAAAATTTG 0.935099 -21 ATTTGAAAGTATATATTTTATAGGAAATATGTC 27 40 0 ATAATTTTTG 0.586409 -25 *** ***** * * Masking position 5 Map Score: 8.18992 Number of sites scoring better than the average of aligned sites = 61 Number in coding regions = 29 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 5 ATAACATAGTGGGGCAGACATGCTGCGTCAGGT 1 91 1 GGGCAGACAC 0.983042 -79 GGGTCTTGGAGGGTCTGAAAATCATAACTTGAT 2 38 1 GGGCTGAAAC 0.970087 -91 CATAATCCATGCCTCAGAAACACTGGAAGCAGG 3 24 0 GCCCAGAAAC 0.94225 -145 CCATCCCCTGGGCACAGCCTCTCGCCCATA 7 8 0 GGCCAGCCTC 0.904516 -224 CGGCATTACAGGCAAAGAATCTCTTCGGGTTTA 7 89 1 GGCAAGAATC 0.842286 -143 AATCCTTCAGGGCGCTGACACCCCAGATAGAGT 8 140 0 GGCCTGACAC 0.975366 -56 ACCAACCGATGGCTCAGAAAAACCTTAAAATTA 14 138 1 GGCCAGAAAC 0.992893 -69 ATGAAAGGCACTAAAAGCCTTTCAATTTC 16 7 1 GGCCTAAAAC 0.814111 -43 GGGGAAGATATCCCCATGGACAG 19 1 1 GGGAAGATAC 0.692104 -170 ATTTAAATATAGCCCAGAAACACACCTCTGATT 20 61 1 AGCCAGAAAC 0.916726 -85 TTCCGGAAGTGGGCCAGCAATTCAG 25 3 0 GGGCAGCAAC 0.968991 -133 *** ****** * Masking position 13 Map Score: 9.09941 Number of sites scoring better than the average of aligned sites = 235 Number in coding regions = 216 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 6 ACTACATGCTCAGATCAGTGTATATCCACG 3 101 0 CAGATCAGTG 0.952043 -68 AGATGCTGCACCGGTCAGTATAGAATCTGA 7 121 1 CCGGTCAGTA 0.949516 -111 TTTCCCCTGGAGGGTCAGGGTTTGAGATAA 8 171 1 AGGGTCAGGG 0.958834 -25 TGGCCACGACCGGGTCAGTGATGGACATTA 19 69 1 CGGGTCAGTG 0.99218 -102 CCAGAGTACCCAGGTCAGTGATGGACATTA 19 136 1 CAGGTCAGTG 0.993508 -35 CAATAAAATTCAGGTCAGGAGCCAGAAGAT 23 33 1 CAGGTCAGGA 0.965629 -147 AATTTTTCAGAAGGTCAGTGACTTCATCGA 23 93 1 AAGGTCAGTG 0.976609 -87 ********** Masking position 7 Map Score: 9.0425 Number of sites scoring better than the average of aligned sites = 99 Number in coding regions = 94 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 7 TTTCCAGTATTCTGTTCAATCAG 1 4 1 CCAGTATTCT 0.808493 -166 CACACTCTCCCCTGGATTATAGGTAACCTA 7 210 0 CCTGGATTAT 0.942518 -22 TCAATATGTACCTGAATTAACCAGGGAAAT 13 21 0 CCTGAATTAA 0.942583 -55 CCCCCTGAATTCTTGAAGATACC 14 4 1 CCTGAATTCT 0.981868 -203 GAAATCGTATTCTGAATTATCCCGGATCAT 15 118 0 TCTGAATTAT 0.833545 -152 TGGCTCCTGACCTGAATTTTATTGAAATAA 23 27 0 CCTGAATTTT 0.931647 -153 CAGAAGATTGCCTGAATTCTTCCTTCAAGG 23 55 1 CCTGAATTCT 0.981868 -125 TATATGGGGACCTGTATTAATGTTGAACCT 26 46 0 CCTGTATTAA 0.877175 -36 ********** Masking position 6 Map Score: 5.99642 Number of sites scoring better than the average of aligned sites = 125 Number in coding regions = 108 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 8 TGTAAATCGGGGGGTGATGTAGGTGGGGGT 1 144 1 GGGGTGATGT 0.902229 -26 CTCTGATTCAGGGGTAATGGCAAAATTTAA 2 84 1 GGGGTAATGG 0.869977 -45 GAGGATTTTTAGGGTGCTGATTACATATTA 3 60 1 AGGGTGCTGA 0.950433 -109 CTCAAACTGAGGGGTAAAGATATTAACTCA 4 31 1 GGGGTAAAGA 0.615828 -87 CCGTAAAAAAAGTTCGCTGGGGTCGTCTCC 6 13 0 AGTTCGCTGG 0.605477 -24 CTGTAATGCCGGGGTGATAAACTGATAACT 7 70 0 GGGGTGATAA 0.786996 -162 TTCCGCTGGAGGGGTGCTGGTTTTCCAGGG 8 109 1 GGGGTGCTGG 0.97538 -87 GAAATCCTTCAGGGCGCTGACACCCCAGAT 8 145 0 AGGGCGCTGA 0.940385 -51 ATATACTGCTGGGTTGAAGGTGCCCCATGA 14 108 1 GGGTTGAAGG 0.776792 -99 ATCAAATTGAAGTGTGATGATAACAGCAT 21 10 0 AGTGTGATGA 0.8826 -50 GCATCAGATGAGTTCGATGAGTGCATGATC 22 19 1 AGTTCGATGA 0.666088 -42 AACTTTCCATGGTTCGATGAAGTCACTGAC 23 106 0 GGTTCGATGA 0.815055 -74 ********** Masking position 2 Map Score: 4.95633 Number of sites scoring better than the average of aligned sites = 1309 Number in coding regions = 1230 Number in noncoding regions = 79 Number of orfs with sites within 600 bp upstream = 69 Fraction of orfs with sites within 600 bp upstream = 0.0110826 Motif number 9 ATAACATAGTGGGGCAGACATGCTGCGTCA 1 91 1 GGGGCAGACA 0.849234 -79 GTAGTATCTGGTGGTAGCCACTGCAGAGTA 3 126 1 GTGGTAGCCA 0.89994 -43 CTGTGCCCAGGGGATGGCCCATGATTCCGG 7 24 1 GGGATGGCCC 0.896889 -208 AATCCTTCAGGGCGCTGACACCCCAGATAG 8 143 0 GGCGCTGACA 0.825275 -53 GGTGGTCATAGACACCAATTTTTT 18 5 1 GTCATAGACA 0.896078 -20 TTATAAGTATTTCATGGACAACCTTTAACT 19 32 0 TTCATGGACA 0.634783 -139 CACTGACCCGGTCGTGGCCACCAAAATTTA 19 59 0 GTCGTGGCCA 0.950721 -112 GACCGGGTCAGTGATGGACATTATATGGGT 19 76 1 GTGATGGACA 0.963382 -95 ACCCAGGTCAGTGATGGACATTATATAGGT 19 143 1 GTGATGGACA 0.963382 -28 GTTCGATGAAGTCACTGACCTTCTGAAAAA 23 95 0 GTCACTGACC 0.674554 -85 AAGGTAAATTGGGATTGCCAGTATATATAA 23 134 0 GGGATTGCCA 0.899937 -46 ********** Masking position 9 Map Score: 4.722 Number of sites scoring better than the average of aligned sites = 305 Number in coding regions = 282 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 10 AGTATTCTGTTCAATCAGTTTCCATCCAGA 1 16 1 TCAATCAGTT 0.771211 -154 TGATTAATATGTAATCAGCACCCTAAAAAT 3 64 0 GTAATCAGCA 0.914173 -105 TGATTACATATTAATCAGTATCATCGTGGA 3 77 1 TTAATCAGTA 0.950471 -92 AGAGTACCTGTTAATCAGTATCATTCTGC 3 150 1 TTAATCAGTA 0.950471 -19 CTTTAATCAGTACTTGTGTATG 9 53 0 TTAATCAGTA 0.950471 -12 CTCAACCAGCACTCACGGGAG 10 2 1 TCAACCAGCA 0.947566 -22 TTATCCCGGATCATCCAGTAAGACGCCCAG 15 102 0 TCATCCAGTA 0.870959 -168 ATGAAAATCTGTATCCAGCAAGTTTTATAT 15 150 1 GTATCCAGCA 0.792618 -120 ********** Masking position 7 Map Score: 2.87217 Number of sites scoring better than the average of aligned sites = 36 Number in coding regions = 27 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 11 GTTGTAATTACTGTATCATTTAACC 2 114 1 CTGATCATTA 0.976746 -15 GGAAGCAGGGCTGGATCACATA 3 1 0 CTGATCAATA 0.971504 -168 TTGTGTATGGCTGCATCTGTTAAAGGGGTCTT 9 30 0 CTGATCTTTA 0.963212 -35 CTCTCATCTGCATCCATTATTCCTTCCCT 15 8 1 CTGATCCTTA 0.938868 -262 GAAATTAAAGCTTCATCACATATAAAGTTTTG 15 53 0 CTTATCAATA 0.791974 -217 TTACACCAATCTGGATCAATAATCCAAGTTAT 15 222 0 CTGATCATAA 0.86879 -48 CTTTCCTCCATGAATCTGTTAAAATGATATA 20 10 1 ATGATCTTTA 0.719636 -136 TTGATAATATCTATATCTTATATGACGATACT 20 106 0 CTAATCTATA 0.703542 -40 TGAGAACTGCATCAGATGAGTTCGATGA 22 7 1 CTGATCAATG 0.888462 -54 *** **** *** Masking position 6 Map Score: 2.50904 Number of sites scoring better than the average of aligned sites = 56 Number in coding regions = 41 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 12 GATGTAGGTGGGGGTTTTCCC 1 159 1 GGGGTTTTCC 0.987856 -11 CCGGTTACATGTGTTTTTCCAGTTATCAGT 7 50 1 GTGTTTTTCC 0.948396 -182 TGGAGGGGTGCTGGTTTTCCAGGGAACTCT 8 115 1 CTGGTTTTCC 0.980876 -81 ATCTGTTAAAGGGGTCTTCCATGGATGACT 9 18 0 GGGGTCTTCC 0.961586 -47 TCTATTAATCCTTGTTTTCCTGGGCGTCTT 15 83 1 CTTGTTTTCC 0.888079 -187 CTGGTTTTTCTACCATCCAT 15 260 0 CTGGTTTTTC 0.869332 -10 GCAGGTATACGGATTTTTCCGGAAGTGGGC 25 22 0 GGATTTTTCC 0.774406 -114 ********** Masking position 5 Map Score: 2.76612 Number of sites scoring better than the average of aligned sites = 160 Number in coding regions = 148 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 13 GAGGCATGGATTATGTGGGAGGATTTTTAG 3 42 1 TTATGTGGGA 0.685324 -127 GTAATATGTATTATATGAGTTAATATCTTT 4 46 0 TTATATGAGT 0.626373 -72 AGCGATATATTTATATAGGATTATATGAAT 14 170 1 TTATATAGGA 0.902934 -37 CAGCAAAACTTTATATGTGATGAAGCTTTA 15 50 1 TTATATGTGA 0.653852 -220 TACCGAGAACATATAAAGGTACTCACCCAC 15 179 1 ATATAAAGGT 0.558461 -91 AATTTCAATTTAATAAAGGTGATTTA 16 34 1 TAATAAAGGT 0.663592 -16 GTGATGGACATTATATGGGTGGGAGGCCCC 19 86 1 TTATATGGGT 0.958957 -85 GTGATGGACATTATATAGGTGGGTATAG 19 153 1 TTATATAGGT 0.935728 -18 AAATTTATGGATATAAAGGTAAATTGGGAT 23 149 0 ATATAAAGGT 0.558461 -31 ATGGGATAAGTTATAAGTGTATGTCCCACC 25 56 0 TTATAAGTGT 0.577802 -80 CTATAGATATTAATATGGGATAAGTTATAA 25 70 0 TAATATGGGA 0.813759 -66 GGTTCAACATTAATACAGGTCCCCATATAA 26 47 1 TAATACAGGT 0.470511 -35 CACCAAAAATTTATATGGGGACCTGTATTA 26 57 0 TTATATGGGG 0.845178 -25 AAAGTATATATTTTATAGGAAATATGTCAT 27 38 0 TTTTATAGGA 0.477981 -27 ********** Masking position 4 Map Score: 3.7575 Number of sites scoring better than the average of aligned sites = 238 Number in coding regions = 193 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 54 Fraction of orfs with sites within 600 bp upstream = 0.00867331 Motif number 14 CATCAATTCCATCAATTTATATCTGATGTA 1 50 1 ATCAATTTAT 0.811492 -120 GTGCCTGCTCATCAAGTTATGATTTTCAGA 2 51 0 ATCAAGTTAT 0.911045 -78 AATGGCAAAATTTAAGTTGTAATTACTGTA 2 99 1 TTTAAGTTGT 0.627278 -30 ACATGTGTTTTTCCAGTTATCAGTTTATCA 7 56 1 TTCCAGTTAT 0.941591 -176 AGAAATTAACTTCAAGTTGTCCGATGAAAA 14 58 0 TTCAAGTTGT 0.906849 -149 GGATCAATAATCCAAGTTATGGATTAACAT 15 212 0 TCCAAGTTAT 0.825227 -58 GCCTTTCAATTTCAATTTAATAAAGGTGAT 16 27 1 TTCAATTTAA 0.575652 -23 TATAGATATTATCAAGTTATTAAAGGGCCA 20 123 1 ATCAAGTTAT 0.911045 -23 TTAATTTATTTTTCATTTATTTCAATAAAA 23 11 1 TTTCATTTAT 0.543223 -169 ATCAGAATGATTCCATTTATAAG 25 123 1 TTCCATTTAT 0.87308 -13 ********** Masking position 5 Map Score: 3.16857 Number of sites scoring better than the average of aligned sites = 89 Number in coding regions = 68 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 15 ********** No masking Map Score: 6.26942e-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