AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00970_bsub_reg_100.orf -o00970_bsub_100.ace -a/home/amcguire/genomes/ORF_bsub.txt -z/home/amcguire/genomes/bsub.fna -g0.44 -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 = 0.44 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: yacF 23 similar to transcriptional regulator (nitrogen regulation protein) Input sequences: #1 serS 300 seryl-tRNA synthetase #2 metS 300 methionyl-tRNA synthetase #3 pabB 166 para-aminobenzoate synthase (subunit A) #4 lysS 91 lysyl-tRNA synthetase #5 yacL 115 similar to hypothetical proteins #6 gltX 90 glutamyl-tRNA synthetase #7 cysE 300 serine acetyltransferase #8 trpS 300 tryptophanyl-tRNA synthetase #9 ileS 300 isoleucyl-tRNA synthetase #10 yloD 233 similar to guanylate kinase #11 yloI 80 similar to pantothenate metabolism flavoprotein #12 def 26 polypeptide deformylase #13 yluA 130 similar to hypothetical proteins #14 yluB 61 similar to hypothetical proteins #15 proS 32 prolyl-tRNA synthetase #16 asnS 143 asparaginyl-tRNA synthetase #17 glyQ 296 glycyl-tRNA synthetase (alpha subunit) #18 alaS 300 alanyl-tRNA synthetase #19 hisS 300 histidyl-tRNA synthetase #20 valS 300 valyl-tRNA synthetase #21 pheS 300 phenylalanyl-tRNA synthetase (alpha subunit) #22 thrS 300 threonyl-tRNA synthetase #23 tyrS 300 tyrosyl-tRNA synthetase #24 leuS 300 leucyl-tRNA synthetase #25 ywiB 300 ywiB #26 thrZ 300 threonyl-tRNA synthetase #27 tyrZ 248 tyrosyl-tRNA synthetase Motif number 1 TTTTCAATCAGGGTGGCAACGCGAGAGCTCTCG 1 214 1 GGGGGAACCG 0.994305 -87 TTTTCAAACAGAGTGGAACCGCGCGGTTAAAGC 7 201 1 GAGGGACCCG 0.994305 -100 GGAATAATCAGGGTGGTACCACGGTTCATTCGT 8 213 1 GGGGGACCCG 0.999676 -88 TTTTCTAAAAGGGTGGTACCGCGAGATAAGCTT 9 213 1 GGGGGACCCG 0.999675 -88 TCAGCAACTAGGGTGGAACCGCGGGAGAACTCT 17 182 1 GGGGGACCCG 0.999675 -115 CCCGTAATCAGGGTGGTACCGCGAGACAGCTCT 18 189 1 GGGGGACCCG 0.999675 -112 ATTCCAACTAGGGTGGCACCACGGGTATAACTC 19 178 1 GGGGGACCCG 0.999676 -123 TCATGAAAAAAGGTGGTACCGCGAAAGAGCTTT 20 208 1 AGGGGACCCG 0.994703 -93 CTTGAGTTGTCGCCGGGACCGCGTACACTGCGC 21 106 1 CGCGGACCCG 0.958855 -195 TCTGAAATAAGGGTGGTACCGCGGCCACAACTC 21 200 1 GGGGGACCCG 0.999675 -101 GCGGAAAAAAGGGTGGAACCACGATTCCGTTTA 22 217 1 GGGGGACCCG 0.999676 -84 CTTATTAGTAGGGTGGTACCGCGATAATCAATC 23 219 1 GGGGGACCCG 0.999675 -82 GCGCTAACGAGGGTGGTACCGCGGGAAAACGAA 24 152 1 GGGGGACCCG 0.999675 -149 TCGGGAACTTGGGTGGAACCACGGGTTAATCAC 26 210 1 GGGGGACCCG 0.999676 -91 TCTTCAACCAGGGTGGTACCGCGTGCATTGAGC 27 173 1 GGGGGACCCG 0.999675 -76 *** ** *** ** Masking position 8 Map Score: 82.3868 Number of sites scoring better than the average of aligned sites = 14 Number in coding regions = 0 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 2 ATCCCCATAAAGGGACGAGAGCTCTCGCGTT 1 231 0 AGGGACGAGG 0.996659 -70 GTCCCTTTATGGGGATGAGGGCTCTTTTTAT 1 246 1 GGGGATGAGG 0.933157 -55 CTCCCGCCCAAAGGACGAGAGCGGCGATAAG 2 249 0 AAGGACGAGG 0.915212 -52 CCTGTAAAAAAGGGACGAATGAACCGTGGTA 8 229 0 AGGGACGAAG 0.918722 -72 TCATCCCATAAGGGACGAGAAAGCTTATCTC 9 235 0 AGGGACGAGA 0.936686 -66 TCGTCCCTTATGGGATGAGAGGGCTTTTTTT 9 248 1 TGGGATGAGG 0.920385 -53 CCGCAAACATAGGGACGAGAGTTCTCCCGCG 17 201 0 AGGGACGAGG 0.996659 -96 TGGCAAGCATAGAGACGGGAGTTTTTTGGTT 17 233 1 AGAGACGGGG 0.907967 -64 CAGGGTTAAAGGTGACGGGCGCATGAATGCC 18 160 1 GGTGACGGGG 0.770321 -141 ACGTTTACACAGGGACGAGAGCTGTCTCGCG 18 208 0 AGGGACGAGG 0.996659 -93 GCTTTCAGCCTGGGGCGGGTTCCTCTCTAAT 19 28 0 TGGGGCGGGT 0.817753 -273 ACATGATAGTAGGGACGAGAGTTATACCCGT 19 198 0 AGGGACGAGG 0.996659 -103 CATGTATAGTAGGGGCGGGAGTTTTTTTCAT 19 224 1 AGGGGCGGGG 0.985234 -77 CCCTTGTACAAGGGACGAGTTGTGGCCGCGG 21 218 0 AGGGACGAGT 0.986161 -83 CCCTTGTACAAGGGACGGGTTTTTTTTATTT 21 235 1 AGGGACGGGT 0.984176 -66 CCCCTATGAAAGGGACGAGGTTGAATAAACG 22 244 0 AGGGACGAGT 0.986161 -57 CCCTTTCATAGGGGGCGGGGTTTTTATATGC 22 261 1 GGGGGCGGGT 0.844201 -40 GTTTACACGAAGGGACGATTGATTATCGCGG 23 237 0 AGGGACGATG 0.918722 -64 CATCCCAAAAAGGGACGAGAGACTTTCGTTT 24 178 0 AGGGACGAGG 0.996659 -123 CGTCCCTTTTTGGGATGAGGGAGTTTTTTTT 24 192 1 TGGGATGAGG 0.920385 -109 TCCCGCAGATAGGGACGAGTGTGTGATTAAC 26 234 0 AGGGACGAGG 0.996659 -67 TCCCTATCTGCGGGACGGGTGTGTTTTTTTA 26 250 1 CGGGACGGGG 0.970605 -51 CGTCCCTTATTGGGATGGGCTCTTTTTTGTG 27 208 1 TGGGATGGGT 0.706768 -41 ********* * Masking position 7 Map Score: 61.156 Number of sites scoring better than the average of aligned sites = 47 Number in coding regions = 33 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 3 TTTGATTTGTTTTCAATCAGGGTGGCAACGCGAGA 1 205 1 TAAAGGGTGG 0.992118 -96 GAAATTAAAATGTTAAAAAAGGAGGTGGGGGT 5 94 1 TAAAAGGAGG 0.85263 -22 GAAGTCTGCTTTTCAAACAGAGTGGAACCGCGCGG 7 192 1 TAAAGAGTGG 0.833482 -109 CATTTTAATGGAATAATCAGGGTGGTACCACGGTT 8 204 1 GAAAGGGTGG 0.952043 -97 ATTCTTCCCCTGTAAAAAAGGGACGAATGAACCGT 8 233 0 TAAAGGGACG 0.900965 -68 ATGCTTGCTTTTTCTAAAAGGGTGGTACCGCGAGA 9 204 1 TTAAGGGTGG 0.937722 -97 TGAGCAATTTTAAAAAAGAGGCTGGGATTTTGTTC 17 147 1 TAAAGGCTGG 0.881215 -150 ATTTTGTTCTCAGCAACTAGGGTGGAACCGCGGGA 17 173 1 CAAAGGGTGG 0.992734 -124 GCATGAATGCCCGTAATCAGGGTGGTACCGCGAGA 18 180 1 CAAAGGGTGG 0.992734 -121 TATGAACGTATTCCAACTAGGGTGGCACCACGGGT 19 169 1 TAAAGGGTGG 0.992118 -132 TGATTGAGTTCATGAAAAAAGGTGGTACCGCGAAA 20 199 1 CAAAAGGTGG 0.938416 -102 ATCAGTCTGTCTGAAATAAGGGTGGTACCGCGGCC 21 191 1 CAAAGGGTGG 0.992734 -110 ATTGGCTTTGCGGAAAAAAGGGTGGAACCACGATT 22 208 1 CAAAGGGTGG 0.992734 -93 TTGCATTCTCTTATTAGTAGGGTGGTACCGCGATA 23 210 1 TTAAGGGTGG 0.937722 -91 GCGTATGCCGCGCTAACGAGGGTGGTACCGCGGGA 24 143 1 CAAAGGGTGG 0.992734 -158 AACTCCCTCATCCCAAAAAGGGACGAGAGACTTTC 24 182 0 TAAAGGGACG 0.900965 -119 TAGTATTTGTCGGGAACTTGGGTGGAACCACGGGT 26 201 1 CAATGGGTGG 0.89809 -100 CCGCCGGCTCTCTGAAACAGGGAGACAAACCGCTA 27 29 0 TAAAGGGAGA 0.673518 -220 AAGACAATGTCTTCAACCAGGGTGGTACCGCGTGC 27 164 1 CAAAGGGTGG 0.992734 -85 AAAGAGCCCATCCCAATAAGGGACGTGGCTCAATG 27 198 0 TAAAGGGACG 0.900965 -51 TTTTTTGTGTTTGTAAAAAAGGAGGAAAA 27 230 1 TAAAAGGAGG 0.85263 -19 * ** ******* Masking position 6 Map Score: 48.4337 Number of sites scoring better than the average of aligned sites = 68 Number in coding regions = 46 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 4 GGATGAGGGCTCTTTTTATTTTCGATAAAT 1 258 1 TCTTTTTATT 0.725414 -43 GAAACACTCCTTTTTTTATTGATTTATCGA 1 279 0 TTTTTTTATT 0.963336 -22 TCGAACCAAAGTTTTTTATTTCATTTGATT 2 55 1 GTTTTTTATT 0.893442 -246 ACGAACAGACTTTTTTTATTTTCATTAAAG 2 104 1 TTTTTTTATT 0.963336 -197 TCGCCGGGAGTTTTTTTATATTTCGTGCAT 3 31 1 TTTTTTTATA 0.76824 -136 TTTTTTACTTGTTTTTAATTGTAAAGCAAT 3 126 0 GTTTTTAATT 0.644473 -41 AATGTTGGTTTTTGTTTATTCTGATATTCG 5 44 1 TTTGTTTATT 0.725414 -72 GCAGAGACGCTTTTTTTATTGGGTAGAGGA 7 253 1 TTTTTTTATT 0.963336 -48 AAGAATGAGCCTTTTTTATTATGTTTTAAG 8 262 1 CTTTTTTATT 0.757739 -39 ATGAGAGGGCTTTTTTTATTTTCTGAAAAA 9 262 1 TTTTTTTATT 0.963336 -39 TTACAGGGGGTTTTTTTGTTAATACTGTTG 13 57 1 TTTTTTTGTT 0.916756 -74 GGGCGGGAGTTTTTTTCATTTTCATCATTA 19 236 1 TTTTTTCATT 0.859789 -65 TGAAGAGCTCTTTTTTCGTTCTCAGCCATT 20 258 1 TTTTTTCGTT 0.719909 -43 AGGGACGGGTTTTTTTTATTTTCCAAAGAC 21 245 1 TTTTTTTATT 0.963336 -56 ACGAAGGGGCGTTTTTTATTTTAATTAAAA 23 266 1 GTTTTTTATT 0.893442 -35 ATAAAGCTCCTTTTTTAATTAAAATAAAAA 23 278 0 TTTTTTAATT 0.850311 -23 TGAGGGAGTTTTTTTTAGTTTGGGAATATT 24 207 1 TTTTTTAGTT 0.704227 -94 CCTTTTTTTGTTTTTCTAGCAG 25 3 1 TTTTTTTGTT 0.916756 -298 GGGTGTGTTTTTTTATTTGAATTGAAT 26 8 1 TTTTTTTATT 0.963336 -293 GACGGGTGTGTTTTTTTATATACAACAATG 26 263 1 TTTTTTTATA 0.76824 -38 ********** Masking position 5 Map Score: 24.9394 Number of sites scoring better than the average of aligned sites = 346 Number in coding regions = 190 Number in noncoding regions = 156 Number of orfs with sites within 600 bp upstream = 155 Fraction of orfs with sites within 600 bp upstream = 0.0248956 Motif number 5 TTTCACCGATTCGCACCAACCATCGGCTCTCTTAGAAAGAGA 1 74 0 TCACCCTCCT 0.997129 -227 TTCTTCGCACCTCTGATTGATTTACTTTTCGT 15 7 0 TCACCTTTCT 0.871454 -26 ATAAAGCTCCTTTCAGCTTATGGAGCTTCTCTCTTTAACAGG 18 58 0 TCAGCTTCCT 0.980446 -243 TTCTCTTCAGTGACAGCAAAAAAGCCCTCCCCCTATGCAAAC 18 241 0 TCAGCCTCCC 0.974436 -60 ATAAGAAGCCTTTCAGCAAACGGCTTCTCTCTCTGCATGCGC 20 62 0 TCAGCCTCCT 0.995084 -239 GCTGGGAAGCTTGCACCAGGGCTTCCCTCTCTTTGAGCCGGT 22 54 0 TCACCCTCCT 0.997129 -247 GGTGCAAGCTTCCCAGCTAAGGACCATTCGCTTTACCGCCTT 22 79 1 TCAGCTTCCT 0.980446 -222 CTGTGCTGATTTTCACCGGCCATCAGCTCTCTGGAACGTAAG 23 56 0 TCACCCTCCT 0.997129 -245 CTTGATTGACTTTCACCAGCCGTCAACTCTCTGCAACAATAT 24 20 0 TCACCCTCCT 0.997129 -281 GCTGGGAAGCTCTCACCTTTCCTTCCCTCTCTGAAAACCGTA 26 68 0 TCACCCTCCT 0.997129 -233 GTGCGCCGGCTCGCACCTACCGCCGGCTCTCTGAAACAGGGA 27 41 0 TCACCCTCCT 0.997129 -208 * **** *** ** Masking position 5 Map Score: 23.2484 Number of sites scoring better than the average of aligned sites = 19 Number in coding regions = 8 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 6 TTGTTTTCAATCAGGGTGGCAACGCGAGAG 1 211 1 TCAGGGTGGC 0.935825 -90 AATCAGTATTCAAAGGCGGCCGCCGCCGTT 7 140 1 CAAAGGCGGC 0.742867 -161 AATGGAATAATCAGGGTGGTACCACGGTTC 8 210 1 TCAGGGTGGT 0.969407 -91 GCTTTTTCTAAAAGGGTGGTACCGCGAGAT 9 210 1 AAAGGGTGGT 0.936383 -91 GAAAGCGACCTTAGGGCGGTGTAAGCTAAG 17 91 1 TTAGGGCGGT 0.899567 -206 TTCTCAGCAACTAGGGTGGAACCGCGGGAG 17 179 1 CTAGGGTGGA 0.879191 -118 ATGCCCGTAATCAGGGTGGTACCGCGAGAC 18 186 1 TCAGGGTGGT 0.969407 -115 CGTATTCCAACTAGGGTGGCACCACGGGTA 19 175 1 CTAGGGTGGC 0.94252 -126 AGTTCATGAAAAAAGGTGGTACCGCGAAAG 20 205 1 AAAAGGTGGT 0.761317 -96 CTGTCTGAAATAAGGGTGGTACCGCGGCCA 21 197 1 TAAGGGTGGT 0.959371 -104 AGCTGAAGTTCAAAGGCGGTAAAGCGAATG 22 103 0 CAAAGGCGGT 0.862599 -198 TTTGCGGAAAAAAGGGTGGAACCACGATTC 22 214 1 AAAGGGTGGA 0.750391 -87 TCTCTTATTAGTAGGGTGGTACCGCGATAA 23 216 1 GTAGGGTGGT 0.855016 -85 GCCGCGCTAACGAGGGTGGTACCGCGGGAA 24 149 1 CGAGGGTGGT 0.941354 -152 CAATGCTGCTCCAAGGCGGTAAATGATATT 26 115 0 CCAAGGCGGT 0.893898 -186 ATGTCTTCAACCAGGGTGGTACCGCGTGCA 27 170 1 CCAGGGTGGT 0.985917 -79 ********** Masking position 3 Map Score: 21.1191 Number of sites scoring better than the average of aligned sites = 95 Number in coding regions = 74 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 7 TATATACATACGCCCTGAAAAAGAATAATTAAAAT 2 141 0 CTGAAAAGAA 0.716362 -160 CCATCTTAGCCTTTAAGATCAAGAATATATACATA 2 166 0 CAGACAAGAA 0.500113 -135 TAAATGATTGTTGACAGGGAAGAGTATAAAG 7 7 1 ATGAAGGGAA 0.904173 -294 CTCTGCATGTAAACATGACAGAGACGCTTTAACCG 7 224 0 ATGAAGAGAC 0.744367 -77 TGGGTAGAGGAAATCAGATAGAGAAACGGGGGGAA 7 272 1 AAGAAGAGAA 0.714138 -29 CATTCTTCCCCTGTAAAAAAGGGACGAATGAACCG 8 234 0 CAAAAGGGAC 0.657347 -67 AGATGAAAAAACGGTTGAAAGGGACAGTCATGTTT 9 28 1 ATGAAGGGAC 0.928278 -273 AAATATGTTGCAGTGAGAGAAAGAAGTACTTGCGT 17 47 1 CAGAAAAGAA 0.748253 -250 CTTGCGTTTACCTCATGAAAGCGACCTTAGGGCGG 17 75 1 CTGAAGCGAC 0.739429 -222 GCTTGCCAGCCGCAAACATAGGGACGAGAGTTCTC 17 206 0 CACAAGGGAC 0.884018 -91 TGCAAACCAACGTTTACACAGGGACGAGAGCTGTC 18 213 0 CACAAGGGAC 0.884018 -88 GCGTTATTCACGCGTTCAGCAGGAAACCTCCGGAG 19 89 0 CTCACAGGAA 0.373834 -212 TAAATACACCTGCTTAGAACGGGAAGAGTACAAAA 20 24 1 TAGACGGGAA 0.628585 -277 AAAAAAGGCGCATGCAGAGAGAGAAGCCGTTTGCT 20 55 1 CAGAAGAGAA 0.887795 -246 GAAAGACACACGTATTGATAAGGACACGAAGGAAT 22 16 1 CTGAAAGGAC 0.939019 -285 ATGATACCGGCTCAAAGAGAGGGAAGCCCTGGTGC 22 49 1 CAGAAGGGAA 0.972352 -252 CAGCTGTGAACCTCTTGAAAAGGAACAGTAATGGC 22 128 1 CTGAAAGGAA 0.918207 -173 AAACCCCGCCCCCTATGAAAGGGACGAGGTTGAAT 22 249 0 CTGAAGGGAC 0.976186 -52 ATTTTGAAAAAAATGTGAAAAGGAAATGATAGATT 25 86 1 ATGAAAGGAA 0.779952 -215 GTCAAAGTGGAATGATGAAAAGGACGTGTCAGA 25 278 1 ATGAAAGGAC 0.829408 -23 ATTGAATACATGCGAAGAAAAGGACATGAATGATA 26 31 1 TAGAAAGGAC 0.721511 -270 ATAGTTACGGTTTTCAGAGAGGGAAGGAAAGGTGA 26 63 1 TAGAAGGGAA 0.834106 -238 ACACACCCGTCCCGCAGATAGGGACGAGTGTGTGA 26 239 0 CAGAAGGGAC 0.979692 -62 GAACCTTAGTAGCAAAGAACGGGAAACCGTTATTC 27 119 1 AAGACGGGAA 0.788923 -130 * *** ****** Masking position 8 Map Score: 20.4362 Number of sites scoring better than the average of aligned sites = 613 Number in coding regions = 524 Number in noncoding regions = 89 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 8 CTCTTTCTAAGAGAGCCGATGGTTGGTGCGAATCG 1 75 1 GAGAGCGGTG 0.988607 -226 GCGAATCGGTGAAAGATGCTGTCTGAATCCATCCT 1 102 1 GAAAGAGGCG 0.795692 -199 GTGGCAACGCGAGAGCTCTCGTCCCTTTATGGGGA 1 226 1 GAGAGCCGCC 0.877 -75 CCCAAAGGACGAGAGCGGCGATAAGTGCAAATCAT 2 239 0 GAGAGCGAAG 0.7064 -62 AAAACTAGCAGTGAGCAGCAAATAGAGGTGAGTA 4 10 0 GTGAGCGATG 0.685013 -82 CTGAAGTTGGGAGAGCAGAAGTCTGCTTTTCAAAC 7 175 1 GAGAGCGGCG 0.99603 -126 CTGCGGTGCTGGGAGCAGATAACGGGCAATGTGGA 8 88 1 GGGAGCGACG 0.949037 -213 GAATGGACTTTGGAGCAGCTGACCGAACTGGAAAA 8 121 1 TGGAGCGGCG 0.965427 -180 CGGAGATGGTGAGAGTCCGGGATGGCCGGAATCAT 9 85 1 GAGAGTCGTG 0.79794 -216 CAGATCAAAAAGCGGCTGACAGAAAAGCCGCT 16 8 1 AAAAGCGGCG 0.67118 -136 CGCATGCAGAGAGAGAAGCCGTTTGCTGAAAGGCT 20 63 1 GAGAGAGGTG 0.909734 -238 GCTTCACCTCTTGAGTTGTCGCCGGGACCGCGTAC 21 97 1 TTGAGTGGCG 0.671567 -204 GTTATGTCAATGAAGCTGACGACAGCATCAGTCTG 21 165 1 TGAAGCGGCG 0.788561 -136 GCTCTGTAACGGGAGTTCCCGTCAGCCATTACTGT 22 152 0 GGGAGTCGCG 0.863861 -149 TTACAGAGCTTAGAGCCGCAGGTGCCGTGTATTGG 22 178 1 TAGAGCGGTC 0.701562 -123 TTACGTTCCAGAGAGCTGATGGCCGGTGAAAATCA 23 57 1 GAGAGCGGCG 0.996033 -244 TATTGTTGCAGAGAGTTGACGGCTGGTGAAAGTCA 24 21 1 GAGAGTGGCG 0.981952 -280 CCCTGTTTCAGAGAGCCGGCGGTAGGTGCGAGCCG 27 42 1 GAGAGCGGTG 0.988607 -207 ****** * * * * Masking position 4 Map Score: 18.0928 Number of sites scoring better than the average of aligned sites = 546 Number in coding regions = 514 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 9 GCGAAACACTCCTTTTTTTATTGA 1 287 0 AACACTCCTT 0.824954 -14 AGAATGTCAAAAAGCTCCCGCCCAAAGGAC 2 264 0 AAAGCTCCCG 0.963905 -37 AAAAAGCCAAAACTCCCGGTTCGCCGGG 3 9 1 AAAACTCCCG 0.943205 -158 GAAATATAAAAAAACTCCCGGCGAACCGGG 3 25 0 AAAACTCCCG 0.943205 -142 GAAAATAAAAAAAGCCCTCTCATCCCATAA 9 255 0 AAAGCCCTCT 0.657225 -46 TATTAACAAAAAAACCCCCTGTAAACATGA 13 51 0 AAAACCCCCT 0.927501 -80 GGCTGACAGAAAAGCCGCTTTTTATCTGCA 16 24 1 AAAGCCGCTT 0.673884 -120 CAGCAACCAAAAAACTCCCGTCTCTATGCT 17 238 0 AAAACTCCCG 0.943205 -59 ATCTTCTGATAAAGCTCCTTTCAGCTTATG 18 78 0 AAAGCTCCTT 0.954193 -223 GAAAATGAAAAAAACTCCCGCCCCTACTAT 19 229 0 AAAACTCCCG 0.943205 -72 AAAAGGACGAAAAGCTCTTTCGCGGTACCA 20 221 0 AAAGCTCTTT 0.659743 -80 TAAAATAAAAAACGCCCCTTCGTTTACACG 23 259 0 AACGCCCCTT 0.839046 -42 AAGATAAAGCTCCTTTTTTAATTAA 23 286 0 AAAGCTCCTT 0.954193 -15 GCAGCGGTGAAAAGCCGCTGACGCATAACT 24 88 1 AAAGCCGCTG 0.648535 -213 CAAACTAAAAAAAACTCCCTCATCCCAAAA 24 199 0 AAAACTCCCT 0.948974 -102 AGTAAAAACCTCCTTCTGATTGAAT 24 286 0 AAACCTCCTT 0.751701 -15 TTTAGAACACTCCTTATTCATTGTT 26 286 0 AACACTCCTT 0.824954 -15 ********** Masking position 2 Map Score: 21.4438 Number of sites scoring better than the average of aligned sites = 396 Number in coding regions = 265 Number in noncoding regions = 131 Number of orfs with sites within 600 bp upstream = 111 Fraction of orfs with sites within 600 bp upstream = 0.0178285 Motif number 10 GACGAGAAAGCTTATCTCGCGGTACCACCCTT 9 221 0 CTTTCCGCGG 0.973498 -80 AGGGACGAGAGTTCTCCCGCGGTTCCACCCTA 17 190 0 GTTTCCGCGG 0.973499 -107 CACCTTTAACCCTGTAACGCAGGATAAGCGGC 18 142 0 CCTTACGCAG 0.963752 -159 AGGGACGAGAGCTGTCTCGCGGTACCACCCTG 18 197 0 GCTTCCGCGG 0.98332 -104 CCCGCTCGATCCTTTAACGCAGGTTCACGTTC 19 135 0 CCTTACGCAG 0.963752 -166 AGGACGAAAAGCTCTTTCGCGGTACCACCTTT 20 216 0 GCTTTCGCGG 0.884345 -85 ACTGAGAGCATTTTTAACGCAGCCGGAAATTG 21 65 1 TTTTACGCAG 0.791209 -236 TCCGGTTCACCTTTACGCGCAGTGTACGCGGT 21 123 0 CTTACCGCAG 0.692581 -178 TGAAATAAGGGTGGTACCGCGGCCACAACTCG 21 202 1 GTGTACGCGG 0.893616 -99 TCACTTGATACTTTTAACGCAGTTATGCGTCA 24 106 0 CTTTACGCAG 0.943078 -195 GGTACCACCCTCGTTAGCGCGGCATACGCCGC 24 140 0 TCGTACGCGG 0.755096 -161 AGAGACTTTCGTTTTCCCGCGGTACCACCCTC 24 160 0 GTTTCCGCGG 0.973499 -141 TCGGCTCGGTGCTGTAACGCAGCATAGACGGC 26 164 0 GCTTACGCAG 0.963752 -137 AAAAAACACACCCGTCCCGCAGATAGGGACGA 26 247 0 CCCTCCGCAG 0.863128 -54 *** ** ***** Masking position 8 Map Score: 16.7474 Number of sites scoring better than the average of aligned sites = 131 Number in coding regions = 112 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 11 GCGAAACACTCCTTTTTTTATTGATT 1 285 0 CACTCCTTTT 0.86644 -16 CTTGAAACCTCCTAATCAGAATGTCA 2 285 0 ACCTCCTAAT 0.656315 -16 ACCCCCACCTCCTTTTTTAACATTTT 5 100 0 ACCTCCTTTT 0.969417 -16 AGTTGCCACTACTCCTATTCTTATTGCTG 14 43 0 TACTCCTATT 0.502013 -19 AGGTAGACCTCCTTATGTATTCCTTA 19 285 0 ACCTCCTTAT 0.910526 -16 CTTTCGCGGTACCACCTTTTTTCATGAACT 20 205 0 ACCACCTTTT 0.757268 -96 AAAGAGCTTTTCGTCCTTTTACAGGGATGA 20 231 1 TCGTCCTTTT 0.770516 -70 TTTGCATCCTCCTTTTATGTAAACAA 21 285 0 TCCTCCTTTT 0.94921 -16 CTTTGTCACTCCTTTTTTTGCATATA 22 285 0 CACTCCTTTT 0.86644 -16 AAGATAAAGCTCCTTTTTTAATTAAAA 23 284 0 AGCTCCTTTT 0.804094 -17 AGTAAAAACCTCCTTCTGATTGAATAC 24 284 0 ACCTCCTTCT 0.856514 -17 TCTGACACGTCCTTTTCATCATTCCA 25 285 0 ACGTCCTTTT 0.850628 -16 TTTAGAACACTCCTTATTCATTGTTGT 26 284 0 CACTCCTTAT 0.675612 -17 TTTTCCTCCTTTTTTACAAACAC 27 236 0 TCCTCCTTTT 0.94921 -13 ********** Masking position 7 Map Score: 13.1122 Number of sites scoring better than the average of aligned sites = 319 Number in coding regions = 121 Number in noncoding regions = 198 Number of orfs with sites within 600 bp upstream = 242 Fraction of orfs with sites within 600 bp upstream = 0.0388693 Motif number 12 TAAAAAAACTCCCGGCGAACCGGGAGTTTTGGCTT 3 14 0 CCCCGACCGA 0.853525 -153 GCTCATTCTTCCCCTGTAAAAAAGGGACGAATGAA 8 237 0 CCCGTAAAGG 0.808632 -64 TTCTACGTTCCCCCTGTAAAATAGACGTCTCTAGT 10 51 0 CCCGTAAAGA 0.947611 -183 TTTGTTACCCTCCAAGACGTGAGATC 12 5 0 CCCCAAACGA 0.977072 -22 ACAAAAAAACCCCCTGTAAACATGAGAGGGTCTTT 13 41 0 CCCGTAACGA 0.982203 -90 CATATTTCCCTCCAAAACAAGAAAGACATTCG 16 122 0 CCCCAAACGA 0.977072 -22 AAACTCCCGCCCCTACTATACATGATAGTAGGGAC 19 213 0 CCCCTAACGA 0.985583 -88 CACAACTCGTCCCTTGTACAAGGGACGGGTTTTTT 21 225 1 CCCGTAAAGA 0.947601 -76 TCCTCTCCTTCCCGTCAATACTTGAACCATACACG 24 247 1 CCCCAAACGA 0.977072 -54 *** *** ** ** Masking position 8 Map Score: 6.17955 Number of sites scoring better than the average of aligned sites = 29 Number in coding regions = 22 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 13 CTTCAGCCTGTAACGGCGGCGGCCGCCTTTGAATAC 7 145 0 TCGGGGCGCC 0.959024 -156 GAGTGGAACCGCGCGGTTAAAGCGTCTCTGTCATGT 7 211 1 GCGGTAAGCC 0.751409 -90 CTGACGTTTGTAACGGAGACTGCTCCGGCTGAGCCT 8 160 0 TCGGGACGCC 0.937045 -141 TCGATTGTCAGCCCGGAGTCTGCGCCAATCAAACGG 10 147 1 GCGGGTCGCC 0.99228 -87 GGATGCAAGAGACCGCGGAATGCTAATTGACGCTAC 10 191 1 GCGCGAAGCA 0.744911 -43 AGCGACCTTAGGGCGGTGTAAGCTAAGGATGAGCAC 17 94 1 GCGGGTAGCA 0.962829 -203 TTTCATAAGTTGACTGCGGCAGCAACCAAAAAACTC 17 251 0 TCTGGGCGCC 0.883027 -46 TCGAGTGACGGATCTGAGTACGCCGAAGCCCTGTTA 18 29 1 GCTGGTAGCA 0.893102 -272 TTTATCAGAAGATCGGAGGAAGCTAATCCTGAGTGC 18 95 1 GCGGGGAGCA 0.955288 -206 CGTTAAAAATGCTCTCAGTCAGCGGCATTTTCTCCC 21 48 0 GCTCGTCGCC 0.899093 -253 TTTTAACGCAGTTATGCGTCAGCGGCTTTTCACCGC 24 91 0 GATGGTCGCC 0.74841 -210 TATCAAGTGAGTGCGGCGTATGCCGCGCTAACGAGG 24 128 1 GCGGGTAGCC 0.987701 -173 * *** *** ** * Masking position 13 Map Score: 6.97396 Number of sites scoring better than the average of aligned sites = 392 Number in coding regions = 354 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 14 GGCTCTCTTAGAAAGAGAGGCTCCCTACTAGTT 1 59 0 GAAGAGAGTC 0.838506 -242 TGTTATTCTTGGAAGAGAAATTCACTTTTTTCA 3 85 1 GGAGAGAATC 0.985466 -82 TTTTTTATTGGGTAGAGGAAATCAGATAGAGAA 7 264 1 GGAGAGGATC 0.970712 -37 AGCCCTGTTAAAGAGAGAAGCTCCATAAGCTGA 18 55 1 AAAGAGAATC 0.896764 -246 TTGCTGTCACTGAAGAGAATTTCGATTTTTATA 18 264 1 TGAGAGAATC 0.912965 -37 TTGAAAGAAGAGTAGAGAAATTCGGGAAACACC 20 141 1 AGAGAGAATC 0.963642 -160 TGACAGAGGACCTCAATTTCTGAT 21 2 1 GAAGAGGATC 0.915701 -299 TTCCTTATATAGAAGAGAAAATCATATCACTAA 25 151 0 AGAGAGAATC 0.963642 -150 TCGAATGAGCGGAAGACAATGTCTTCAACCAGG 27 152 1 GGAGACAATC 0.907851 -97 ** ****** ** Masking position 6 Map Score: 4.63118 Number of sites scoring better than the average of aligned sites = 81 Number in coding regions = 72 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 15 GAGGCCATACATGACATGAAAGGAAGTATTTGA 6 66 1 ATGAAGAAGG 0.714195 -25 CCCTGTAAAAAAGGGACGAATGAACCGTGGTAC 8 228 0 AAGGAGAAGA 0.882605 -73 CCTTTTTTACAGGGGAAGAATGAGCCTTTTTTA 8 247 1 AGGGAGAAGA 0.97992 -54 GAGTTCAGCAAGGAAACTAAAGGGCTGATCTAC 9 120 0 AGGAATAAGG 0.516525 -181 GAAAAAATGCAGTGGAGGAATGAAA 9 286 1 AGTGAGAAGA 0.860617 -15 CGTATTGATAAGGACACGAAGGAATGATACCGG 22 26 1 AGGAAGAAGA 0.95669 -275 TCATATGAAAAGGTAAAGATTGAGACAAGTAGA 23 18 1 AGGTAGATGA 0.716138 -283 GGCTTTCAGTAGTGAAAGAACGGACCTGATCCG 23 149 1 AGTGAGAAGG 0.819296 -152 CGTTTACACGAAGGGACGATTGATTATCGCGGT 23 236 0 AAGGAGATGA 0.776811 -65 AAATGTGAAAAGGAAATGATAGATTTCGGAAAA 25 96 1 AGGAAGATGA 0.910922 -205 ATGAGCAATGATGGTAAGATAGAAGCAGTTGAA 25 215 1 ATGGAGATGA 0.776811 -86 TGCGAAGAAAAGGACATGAATGATAGTTACGGT 26 41 1 AGGAAGAAGA 0.95669 -260 GTTTTCAGAGAGGGAAGGAAAGGTGAGAGCTTC 26 72 1 AGGGAGAAGG 0.972851 -229 **** * *** ** Masking position 6 Map Score: 8.4531 Number of sites scoring better than the average of aligned sites = 252 Number in coding regions = 199 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 62 Fraction of orfs with sites within 600 bp upstream = 0.00995824