AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00950_ctra_reg_300.orf -o00950_ctra_300.ace -a/home/amcguire/genomes/ORF_ctra.txt -z/home/amcguire/genomes/ctra.fna -g0.41 -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 = 0.41 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 dhnA 300 Predicted 1,6-Fructose biphosphate aldolase (dehydrin family) #2 ydaO 153 PP-Loop Superfamily ATPase #3 surE 100 SurE-like Acid Phosphatase #4 ubiA 111 4-hydroxybenzoate octaphenyltransferase #5 CT355 300 hypothetical protein #6 CT389 181 hypothetical protein #7 aspC 89 Aspartate Aminotransferase #8 CT421 300 hypothetical protein #9 CT421.1 184 hypothetical protein #10 CT423 132 (CBS Domain) #11 rsbV_1 188 Sigma Regulatory Factor #12 CT425 177 hypothetical protein #13 CT426 196 Fe-S oxidoreductase #14 lpxC 100 UDP-3-O-Acyl GlcNAc Deacetylase #15 cutE 63 Apolipoprotein N-Acetyltransferase #16 yciA 135 Acyl-CoA Thioester Hydrolase #17 CT538 300 hypothetical protein #18 greA 113 Transcription Elongation Factor G #19 tyrB 187 Aromatic AA Aminotransferase #20 ygcA 85 rRNA Methyltransferse #21 hctA 300 Histone-Like Developmental Protein Motif number 1 CAGAATAAAAATTAAAAAGAGAAAATAGTT 1 10 0 ATAAAAAGAG 0.831681 -291 ATTCTTTTGCACAGAAAAGGGCTTTGTAAAG 2 11 1 AAGAAAAGGG 0.981432 -143 TAAGTCTTAGAAAGAAAAGAGCTTCTTTACA 2 35 0 AAGAAAAGAG 0.955066 -119 TCACTTAAATATCGAAAAGAGGGGTAACTAA 5 22 0 ACGAAAAGAG 0.704497 -279 AACACTTTTAACAAAAAAGCGTTATATCCTC 5 92 0 AAAAAAAGCG 0.882979 -209 GGTAAGATCCAAAGAAAAAGGGGAGGAGGAA 5 232 1 AAGAAAAAGG 0.91787 -69 TTTAGAGAGCACTGAGAAAAG 7 1 0 ATGAGAAAAG 0.708496 -89 AACGAGTTTCAAAGAAAAGGTGCATGTTAAG 8 200 0 AAGAAAAGGT 0.618382 -101 GGAACGGTCTATAGAAGAGGGTTTTTCTCAC 8 243 0 AAGAAGAGGG 0.795944 -58 TCTTCTTTTTAAAAAGAAGGGAATTTAGTGG 9 26 1 AAAAGAAGGG 0.949322 -159 AGCTCTATTGAAAAAAAAACGGCGCTCTACT 9 70 1 AAAAAAAACG 0.614701 -115 TGCCTTCCTGAATGGGAAGGGATTTAAAAAG 9 141 0 ATGGGAAGGG 0.854618 -44 AGAGATTTCTAGAGGGAAGCGAAGACTT 10 8 0 AAGGGAAGCG 0.783072 -125 AAGATTAAGTAGTTAGAAGAGCTGCACTATA 11 153 0 ATTAGAAGAG 0.501308 -36 GAGGATCTTCAAAGAAAAGGCTATGTTACAC 12 84 0 AAGAAAAGGC 0.706026 -94 TTACTCCTATACTGAGAAGGGCTGTAGCGCA 13 50 0 ATGAGAAGGG 0.9662 -147 GCTTGCTAAAAAAAAAAAAGGATAATATACG 14 57 1 AAAAAAAAGG 0.813501 -44 TATTAGACTCATATAGAAGGGTGAT 16 121 1 AATAGAAGGG 0.807586 -15 TCAAAGTCTTATTGAAAAACGTAATGAGCTT 17 54 1 ATGAAAAACG 0.708844 -247 GAGAGTAGGTAGAGAACAGGGATATGGGCGG 17 198 1 AAGAACAGGG 0.795944 -103 CCATTAAGCAACTGAAAAAAGTAAGGATAAG 17 279 1 ATGAAAAAAG 0.728017 -22 ACGCCGAATAACAAAAAAGAGCAATATTACA 18 64 0 AAAAAAAGAG 0.892426 -50 ATATTTCCGGACTAAAAAGGGGAGCCATC 18 95 1 ATAAAAAGGG 0.924742 -19 AGTGCCCTCTATAAAAAAGAGAAAGCGCTAA 20 15 0 AAAAAAAGAG 0.892426 -71 AGAAGGGATCAATGAGAAGAGGAAAGAGGGC 20 58 0 ATGAGAAGAG 0.919969 -28 AAAAAAGAGAAGGGATCAATGAGA 20 72 0 AAGAGAAGGG 0.97959 -14 TGTTTAGAAAAGAAAGAAAGGAGCTTGTTCT 21 26 0 AAAAGAAAGG 0.798417 -275 GGTTTCTTTTAATAGAAAGCGCTGAACCTTG 21 55 0 ATAGAAAGCG 0.480298 -246 * ********* Masking position 8 Map Score: 30.6123 Number of sites scoring better than the average of aligned sites = 451 Number in coding regions = 451 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 2 AGTCTTTCATTTTCTTTACCTCACCTTCTCAAAG 1 103 1 TTTCTTTCCC 0.944669 -198 AAGAAAAGAGCTTCTTTACAAAGCCCTTTTCTGT 2 21 0 CTTCTTTAAC 0.956146 -133 AAGAAGCTCTTTTCTTTCTAAGACTTACCTGGAT 2 39 1 TTTCTTTAGC 0.906309 -115 ACATGCACCTTTTCTTTGAAACTCGTTTAAAAAT 8 204 1 TTTCTTTACC 0.940257 -97 TAATCATTATCTTCTTTTTAAAAAGAAGGGAATT 9 17 1 CTTCTTTAAA 0.88283 -168 GAGTTGCTATTTTCTTTTTAAATCCCTTCCCATT 9 128 1 TTTCTTTAAC 0.945365 -57 CTCCCAATAATTTCTTTTACAGGAGCTGGCTTTT 10 97 1 TTTCTTTCGA 0.783867 -36 AACATAGCCTTTTCTTTGAAGATCCTCTGTAAAG 12 88 1 TTTCTTTAAC 0.945305 -90 GCCTTCATGACTTCTTTATTTCTACTCGTCTGTT 13 17 1 CTTCTTTTCA 0.62971 -180 GGGGACAAGACTTCTTTTTCTGACAGCAGTCGCT 13 140 0 CTTCTTTCGC 0.92969 -57 TTCTAAGGGGATTCTTTTTCTCTCATCTTGAATG 15 16 1 ATTCTTTCCC 0.706082 -48 TCTTGATTTTCTTCTATATCGAGACTACTATCCA 16 25 1 CTTCTATCAA 0.654062 -111 AAATGAAAAACTTCTATGTCGAGCAAGAAAATCA 17 16 0 CTTCTATCAC 0.845462 -285 CAAACTGATTCTTCTTTTAATCACCAGCCTCCTT 17 245 0 CTTCTTTACC 0.951995 -56 AGCTCCTTTCTTTCTTTTCTAAACAAGGTTCAGC 21 32 1 TTTCTTTTAC 0.811083 -269 CTGAATAGGGTTTCTTTTAATAGAAAGCGCTGAA 21 60 0 TTTCTTTAAA 0.856722 -241 ATAAAAAATTTTTCTATTAACAGAGGAAAAATAA 21 116 1 TTTCTATAAA 0.580399 -185 ******* * * * Masking position 7 Map Score: 12.583 Number of sites scoring better than the average of aligned sites = 200 Number in coding regions = 200 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 3 CAGTTATATTAAAATAACCTTGGTGTTCAA 1 47 0 AAAATAACCT 0.800816 -254 CTCACCTTCTCAAAGATCTTAACTAAAGAC 1 122 1 CAAAGATCTT 0.705062 -179 ACCTCAAGATAAACGATCTTTCCTGGAGTC 1 149 0 AAACGATCTT 0.82622 -152 TCTTAGAAAGAAAAGAGCTTCTTTACAAAG 2 32 0 AAAAGAGCTT 0.792827 -122 TATTATTTTAAAAAGATCTAATAGCTCATT 3 69 1 AAAAGATCTA 0.617288 -32 CTGTACGTTGAAACGAACTTCAACGTACTT 4 15 1 AAACGAACTT 0.752451 -97 TTTCAGCAAGAAAAGCTCCTTCTGATTACA 4 46 1 AAAAGCTCCT 0.941024 -66 TTATAGGTGTAAAAGATCTTGTATTGTAAT 4 70 0 AAAAGATCTT 0.942116 -42 TATATTCTAAAAAAGAACCTACCCTCGTCC 5 162 0 AAAAGAACCT 0.956852 -139 AAATAACCCAACAAGATCCTTCTGCCTTCC 9 164 0 ACAAGATCCT 0.909696 -21 TATCACGATCAAAAGCACCTTTTCGTAATC 11 94 0 AAAAGCACCT 0.910755 -95 TAACAAGAGAACAAGCTCCTTTCTTTCTTT 21 19 1 ACAAGCTCCT 0.822561 -282 TAACAGAGGAAAAATAACCTATTGATAAAC 21 133 1 AAAATAACCT 0.800816 -168 GAAAAAATATCCTCTAGTTGTTG 21 288 0 AAAATATCCT 0.862844 -13 ********** Masking position 3 Map Score: 9.95638 Number of sites scoring better than the average of aligned sites = 299 Number in coding regions = 297 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 1 Fraction of orfs with sites within 600 bp upstream = 0.000160617 Motif number 4 TTTATCTTGAGGTTTTCTCCTACGAAATAAATGTTTGCA 1 166 1 GGTTTCCCAA 0.977075 -135 TCTGACGGCTGGGTCCCTCCTCCCCTATAGCTTTTACCT 5 122 1 GGTCTCCCCA 0.994062 -179 CTTTTTCTTTGGATCTTACCGCCTCCCTAGAGATGTGGC 5 213 0 GGTCACCCCA 0.983946 -88 TAAGAATTTTGGGTTGTTCCTCCTCCCCTTTTTCTTTGG 5 240 0 GGTTTCCCCT 0.945472 -61 GTTCGATCCCGGCTCTGGCCATCCCATGAGTATGCGGGT 8 60 0 GGTCGCCCCA 0.980958 -241 GCCAGAGCCGGGATCGAACCGACGACACAAGGATCTTCA 8 80 1 GGTCACCCAA 0.979426 -221 CTATAGAAGAGGGTTTTTCTCACGAGGAATTTTTAAACG 8 227 0 GGTTTCTCAA 0.806882 -74 TGTTTTGATAGGGTCTTTCCTACTAGGAAGACCCCTATC 13 85 1 GGTCTCCCAA 0.992369 -112 TGAGGTCAGCGGTTCGATCCCGCTATGCTCCAATTTCTG 19 12 0 GGTCTCCCAT 0.976243 -176 ** ** *** * * * Masking position 4 Map Score: 8.38169 Number of sites scoring better than the average of aligned sites = 21 Number in coding regions = 21 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 5 CTCTTTTTAATTTTTATTCTGCACACATTGAACA 1 20 1 TTTTATGCAC 0.670149 -281 CTATAAATCTTTCTTAGCATGCAAACATTTATTT 1 190 0 TTCTAGGCAA 0.965849 -111 CTTACCTGGATTTCTAATTCGCAAATCTTTAAAA 2 62 1 TTTTAAGCAA 0.909153 -92 CAACGTACTTTTTTCAGCAAGAAAAGCTCCTTCT 4 35 1 TTTCAGGAAA 0.673608 -77 TGATTTGTAGTTTTTAGGTAGAAAAACCTTAAGA 5 274 0 TTTTAGGAAA 0.883912 -27 TTGACTAAGAATTTTAGGAGGCAATGAAATCCAG 6 60 0 ATTTAGGCAA 0.881002 -122 TCCAGCGTAATTTTTAGAGAGCACTGAGAAAAG 7 10 0 TTTTAGGCAC 0.962665 -80 TCAATGATATTTCTTAACATGCACCTTTTCTTTG 8 188 1 TTCTAAGCAC 0.815914 -113 AAAAATTTTTATCGTAACATGCAAGTAAGCCTCG 10 47 1 ATCTAAGCAA 0.559978 -86 GATAGGGGTCTTCCTAGTAGGAAAGACCCTATCA 13 90 0 TTCTAGGAAA 0.831542 -107 TCCTTTTTTTTTTTTAGCAAGCAAGCGATATCAA 14 45 0 TTTTAGGCAA 0.976735 -56 CAAAAGTATTTTTACAAAAAGCAAAACAGGCCTA 17 155 0 TTTCAAGCAA 0.74801 -146 ATGGCTCCCCTTTTTAGTCCGGAAATATACGCCG 18 89 0 TTTTAGGGAA 0.819374 -25 ATTAGCTCAGTTGGTAGAGCGCAACAATGGCATT 19 53 0 TTGTAGGCAA 0.889297 -135 CTTTCTCTTTTTTATAGAGGGCACTTTTATCAAC 20 21 1 TTTTAGGCAC 0.962665 -65 *** *** **** Masking position 6 Map Score: 11.8872 Number of sites scoring better than the average of aligned sites = 68 Number in coding regions = 68 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 6 ATGATTAATACAAATTTTTATTTAAATCTA 3 19 0 CAAATTTTTA 0.839353 -82 GGAACAACCCAAAATTCTTAAGGTTTTTCT 5 259 1 AAAATTCTTA 0.916318 -42 ATTGCCTCCTAAAATTCTTAGTCAAATCCG 6 69 1 AAAATTCTTA 0.916318 -113 GAGAAAAAACAAGATTTTTAGGAGAAGAGC 6 119 0 AAGATTTTTA 0.839591 -63 TGTTACGATAAAAATTTTTATCGATATAGA 10 36 0 AAAATTTTTA 0.957225 -97 TGGTCCTGAAAAAATTTTTGGTGTAACATA 12 64 1 AAAATTTTTG 0.873058 -114 ATGCGAAAGCAAAATTTTTACAGATAAAGG 12 123 1 AAAATTTTTA 0.957225 -55 ATTTAATAATAAAATTTTTCTTGTTTTTTG 18 31 1 AAAATTTTTC 0.926888 -83 AGTTTTATAAAAAATTTTTCTATTAACAGA 21 110 1 AAAATTTTTC 0.926888 -191 ********** Masking position 5 Map Score: 6.81575 Number of sites scoring better than the average of aligned sites = 57 Number in coding regions = 57 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 7 AACCCAAAAAAGCGCAACACACTCTCCGTC 1 250 0 AGCGCAACAC 0.966222 -51 GGTAACTAAGAGCAAAACAC 5 1 0 AGCAAAACAC 0.944889 -300 TATACATTTTAGGACAACAGCTACAGAGAG 11 48 0 AGGACAACAG 0.946878 -141 AAATTTTTTCAGGACCACACAACTTTGATA 12 51 0 AGGACCACAC 0.788015 -127 GAAGGGCTGTAGCGCAACAGACGAGTAGAA 13 36 0 AGCGCAACAG 0.966222 -161 GAAAGACCCTATCAAAACAGCTGTTACTCC 13 74 0 ATCAAAACAG 0.599666 -123 CCCCGTGAAAAGCAAAACTCACAAACTGAT 13 170 1 AGCAAAACTC 0.706957 -27 TTTTACAAAAAGCAAAACAGGCCTAACCTC 17 150 0 AGCAAAACAG 0.944889 -151 CAGTTGGTAGAGCGCAACAATGGCATTGTT 19 50 0 AGCGCAACAA 0.906241 -138 TACACGATTTAGGACAACAAGCTGTCATCT 19 118 1 AGGACAACAA 0.857611 -70 ********** Masking position 7 Map Score: 6.46837 Number of sites scoring better than the average of aligned sites = 64 Number in coding regions = 63 Number in noncoding regions = 1 Number of orfs with sites within 600 bp upstream = 1 Fraction of orfs with sites within 600 bp upstream = 0.000160617 Motif number 8 TAACTAAAGACTCCAGGAAAGATCGTTTATC 1 141 1 CTCAGGAAAG 0.974628 -160 CGAATTAGAAATCCAGGTAAGTCTTAGAAAG 2 52 0 ATCAGGTAAG 0.926452 -102 TTTTATTTAAATCTAGGAAAGGA 3 3 0 ATCAGGAAAG 0.926452 -98 TAGGTAAAAGCTATAGGGGAGGAGGGACCCA 5 131 0 CTAAGGGGAG 0.915155 -170 TTTGCCACATCTCTAGGGAGGCGGTAAGATC 5 210 1 CTCAGGGAGG 0.970517 -91 ATAGAGATTTCTAGAGGGAAGCGAAGACTT 10 10 0 CTAAGGGAAG 0.978803 -123 CAGCCTCCTTCTAAAGGGAAGCCTTTCCGCC 17 224 0 CTAAGGGAAG 0.978802 -77 GAGCTAATACCCCGAGGGAAGAAACTAGGTT 19 79 1 CCCAGGGAAG 0.970518 -109 ATTTTCTAGAATCTAGGTAAGGATCCTAAAG 21 195 0 ATCAGGTAAG 0.926452 -106 *** ******* Masking position 5 Map Score: 9.2301 Number of sites scoring better than the average of aligned sites = 61 Number in coding regions = 61 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 9 TCACCATATTTAAAATAGGAGCATCTTCGA 1 281 1 TAAAGGCTCT 0.848102 -20 TTTTACCTAGGACGAGGGTAGGTTCTTTTTTAGAAT 5 153 1 GAAGGGGTCT 0.974119 -148 ACGCTGGACAGATGAGAGTCTCATCTTTATATTACC 7 36 1 GAAAGTCTCT 0.859773 -54 GGATCGAACCGACGACACAAGGATCTTCAGTCCTCT 8 90 1 GAAACGGTCT 0.909352 -211 TCCCATTCAGGAAGGCAGAAGGATCTTGTTGGGTTA 9 155 1 GAGAGGGTCT 0.946708 -30 GATGAGGGGCGAAAAAGCCAGCTCCTGTAAAAGAAA 10 107 0 GAAGCGCCCT 0.865992 -26 GAATGTAAGCTAGTAAGGGAGCCCCTTTA 15 45 1 TAAGGGCCCT 0.806866 -19 GATGACTGGGGAGTAGAGGTGGGCCTGTAACTCTGA 16 66 1 GAAAGGGCCT 0.981214 -70 GCATGTAGTCGATTCAGGATGCCCCTACCCCTAGAG 17 108 1 GACGGGCCCT 0.861462 -193 ACAGAAATTGGAGCATAGCGGGATCGAACCGCTGAC 19 11 1 GAAAGGGTCG 0.889923 -177 GGGCCCTGTTGATAAAAGTGCCCTCTATAAAAAAGA 20 26 0 GAAAGCCTCT 0.837489 -60 TCAATGAGAAGAGGAAAGAGGGCCCTGTTGATAAAA 20 45 0 GAAAGGGCCT 0.981214 -41 AGAAAAGAAAGAAAGGAGCTTGTTCTCTTGTTAGAA 21 16 0 GAGAGTGTCT 0.711668 -285 ** * ** ** *** Masking position 2 Map Score: 5.80828 Number of sites scoring better than the average of aligned sites = 114 Number in coding regions = 113 Number in noncoding regions = 1 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 10 TGAGGGAAATTTTAAAGATTTGCGAATTAG 2 75 0 TTTAAAGATT 0.502495 -79 CAGCGTAATTTTTAGAGAGCACTGAGAAAA 7 12 0 TTTAGAGAGC 0.835433 -78 TGGACGGTAATATAAAGATGAGACTCTCAT 7 47 0 TATAAAGATG 0.540083 -43 AATTTAGAGAGTTCTCCGTCAA 8 3 1 TTTAGAGAGT 0.942852 -298 GCTAATGGCGTTTAGAGAGTTTTGACGGAG 8 24 0 TTTAGAGAGT 0.942852 -277 TTTTTATCGATATAGAGATTTCTAGAGGGA 10 22 0 TATAGAGATT 0.82646 -111 GGACAACAGCTACAGAGAGTGTGATTTACT 11 37 0 TACAGAGAGT 0.791068 -152 TGCACTATATTCTAGAGATTGCACGAAAAG 11 132 0 TCTAGAGATT 0.635215 -57 TTTCGCATGCTTTACAGAGGATCTTCAAAG 12 101 0 TTTACAGAGG 0.773723 -77 GGCCACATCCTTTAGATAGGGGTCTTCCTA 13 108 0 TTTAGATAGG 0.634942 -89 TACTATCCATTACAGAGATGACTGGGGAGT 16 50 1 TACAGAGATG 0.706585 -86 AGCAGTGCGCTATAGAGAGGTTTTATT 19 171 1 TATAGAGAGG 0.95045 -17 CTTTCTCTTTTTTATAGAGGGCACTTTTAT 20 21 1 TTTATAGAGG 0.697617 -65 ********** Masking position 6 Map Score: 5.21584 Number of sites scoring better than the average of aligned sites = 206 Number in coding regions = 206 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 AAAAACCTGCGTAATGAGCTATTAGATCTT 3 81 0 CGAATGAGCT 0.971022 -20 GTATTGTAATCAGAAGGAGCTTTTCTTGCTG 4 49 0 CAAAGGAGCT 0.984391 -63 GAACCGACGACACAAGGATCTTCAGTCCTCT 8 95 1 CAAAGGATCT 0.955177 -206 TTCAGGAAGGCAGAAGGATCTTGTTGGGTTA 9 160 1 CAAAGGATCT 0.955177 -25 TATTGAAAAACGTAATGAGCTTGTGCCTAAC 17 63 1 CGAATGAGCT 0.971022 -238 TAGAAAAGAAAGAAAGGAGCTTGTTCTCTTG 21 22 0 AGAAGGAGCT 0.938805 -279 ** ******** Masking position 5 Map Score: 3.09481 Number of sites scoring better than the average of aligned sites = 43 Number in coding regions = 43 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 ATTTTCTTTACCTCACCTTCTCAAAGATCT 1 111 1 CCTCACCTTC 0.629154 -190 CGGCTGGGTCCCTCCTCCCCTATAGCTTTT 5 127 1 CCTCCTCCCC 0.975381 -174 TAAAAAAGAACCTACCCTCGTCCTAGGTAA 5 155 0 CCTACCCTCG 0.871287 -146 TTGGGTTGTTCCTCCTCCCCTTTTTCTTTG 5 241 0 CCTCCTCCCC 0.975381 -60 CCCTACCTTCAACTCGCTCTC 12 2 1 CCTACCTTCA 0.740403 -176 CAGGCCCACCTCTACTCCCCAGTCATCTCT 16 63 0 TCTACTCCCC 0.699358 -73 TCAGGATGCCCCTACCCCTAGAGCATGGGG 17 121 1 CCTACCCCTA 0.860219 -180 GCAAAACAGGCCTAACCTCCCCATGCTCTA 17 139 0 CCTAACCTCC 0.836164 -162 CTGTTCTCTACCTACTCTCACTTCCTTGCA 17 187 0 CCTACTCTCA 0.932411 -114 TAATCACCAGCCTCCTTCTAAAGGGAAGCC 17 232 0 CCTCCTTCTA 0.486677 -69 GGCCCTCTTTCCTCTTCTCATTGATCCCTT 20 57 1 CCTCTTCTCA 0.644751 -29 ********** Masking position 3 Map Score: 2.57525 Number of sites scoring better than the average of aligned sites = 203 Number in coding regions = 202 Number in noncoding regions = 1 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 13 TCTTAACTAAAGACTCCAGGAAAGATCGTTTAT 1 138 1 AGACAGGAAA 0.813998 -163 AAATATGGTGAAAACCCAAAAAAGCGCAACACA 1 259 0 AAACAAAAAA 0.734697 -42 TTAAGTGAAAAAATTCCAGAAAAATACATTTTT 5 45 1 AAACAGAAAA 0.96581 -256 TCCTCAAGCCAAAGGAAACAAAAATGTATTTTT 5 64 0 AAAAACAAAA 0.604541 -237 TTTTCTACCTAAAAACTACAAATCAAGG 5 283 1 AAACACAAAT 0.796407 -18 AATTATTGGGAGAGTCCACAAAAAGACTCGAGG 10 76 0 AGACACAAAA 0.900511 -57 CTTCTCAATGAAACACTAGTAAATCACACTCTC 11 20 1 AAACAGTAAA 0.782098 -169 GATTGCACGAAAAGGCATGAAATATCACGATCA 11 113 0 AAACTGAAAT 0.537734 -76 CTTACATTCAAGATGAGAGAAAAAGAATCCCCT 15 21 0 AGAAAGAAAA 0.763525 -43 GATATAGAAGAAAATCAAGAAATTCCTTGGAGG 16 12 0 AAACAGAAAT 0.909445 -124 TTACATCACAAAAAACAAGAAAAATTTTATTAT 18 36 0 AAACAGAAAA 0.96581 -78 ATCCTTACCTAGATTCTAGAAAATGGTTGCATG 21 202 1 AGACAGAAAA 0.958743 -99 *** * ****** Masking position 3 Map Score: 4.0005 Number of sites scoring better than the average of aligned sites = 101 Number in coding regions = 101 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 14 GCTATAGGGGAGGAGGGACCCAGCCGTCAGA 5 122 0 AGAGGGACCC 0.736043 -179 GATTTTTAGGAGAAGAGCGCTCGAGTGTCGG 6 106 0 AGAGAGCGCT 0.969595 -76 GTATTTCTCTAGAATAGCCCCGTGTATGGCT 8 147 0 AGATAGCCCC 0.796599 -154 GGAACAGAATAGTAGAGCGCCGTTTTTTTTT 9 80 0 AGAGAGCGCC 0.973647 -105 TTAAGTAGTTAGAAGAGCTGCACTATATTCT 11 149 0 AGAGAGCTGC 0.829429 -40 TCCTATACTGAGAAGGGCTGTAGCGCAACAG 13 46 0 AGAGGGCTGT 0.749299 -151 GTAAGCTAGTAAGGGAGCCCCTTTA 15 49 1 AAGGAGCCCC 0.859183 -15 CGGACTAAAAAGGGGAGCCATC 18 102 1 AGGGAGCCAT 0.615501 -12 GACAGTAAGCAGCAGTGCGCTATAGAGAGGT 19 161 1 AGAGTGCGCT 0.909693 -27 CCCTGTTGATAAAAGTGCCCTCTATAAAAAA 20 28 0 AAAGTGCCCT 0.827663 -58 CACTTTTATCAACAGGGCCCTCTTTCCTCTT 20 42 1 AAAGGGCCCT 0.915404 -44 CCTATTGATAAACAGAGCGGTACAAGGAGAT 21 150 1 AAAGAGCGGT 0.800277 -151 ** ******** Masking position 1 Map Score: 2.50381 Number of sites scoring better than the average of aligned sites = 162 Number in coding regions = 162 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 15 ********** No masking Map Score: 9.11159e-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