AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00290_bsub_reg_300.orf -o00290_bsub_300.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/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 Input sequences: #1 ybgA 218 similar to transcriptional regulator (GntR family) #2 ybgB 33 ybgB #3 ybgE 208 similar to branched-chain amino acid aminotransferase #4 ydaO 300 similar to hypothetical proteins #5 mutT 58 mutator protein #6 ydaP 66 similar to pyruvate oxidase #7 yheM 284 similar to D-alanine aminotransferase #8 pdhA 300 pyruvate dehydrogenase (E1 alpha subunit) #9 ileS 300 isoleucyl-tRNA synthetase #10 ilvD 288 dihydroxy-acid dehydratase #11 ypgR 59 similar to hypothetical proteins #12 bsaA 300 glutathione peroxidase #13 yqiS 124 similar to phosphate butyryltransferase #14 yqiR 152 similar to transcriptional regulator (sigma-L-dependent) #15 valS 300 valyl-tRNA synthetase #16 leuC 49 3-isopropylmalate dehydratase (large subunit) #17 ilvB 300 acetolactate synthase (acetohydroxy-acid synthase) (large subunit) #18 leuS 300 leucyl-tRNA synthetase #19 alsS 154 alpha-acetolactate synthase (pH6) #20 dltA 300 D-alanyl-D-alanine carrier protein ligase (Dcl) #21 dltE 90 alternate gene name: ipa-1r #22 ywaA 140 alternate gene name: ipa-0r; similar to branched-chain amino acid aminotransferase Motif number 1 ATTACGAATTTAGCACCGCCCTTATCAAACTGT 1 75 1 TCACCCCCTT 0.956033 -144 TTTCCTTTAATAATACGCCGCTTCACACCTATA 3 115 0 TTACGCGCTT 0.645454 -94 CCCCATACCTCCTTTTCCCGCTAAA 5 44 0 CTACCCCTTT 0.975166 -15 AACGTATCCTCCTTTTTCCTTTTTT 6 52 0 CATCCCCTTT 0.806905 -15 ACTAAGTCACCTCTTCCTTTCTTTTAAACA 8 281 0 CCTCTCCTTT 0.64018 -20 GCTTATCTCGCGGTACCACCCTTTTAGAAAAAG 9 211 0 CTACCCCCTT 0.984434 -90 CGAGATAAGCTTTCTCGTCCCTTATGGGATGAG 9 234 1 TCTCGCCCTT 0.902514 -67 TTTCTTGTTTCGACTCCGCCTTTTATTATGCAA 13 91 0 CCTCCCCTTT 0.964301 -34 CTGTTACCACCTTTCTTGTTTCGA 13 111 0 TTACCCCTTT 0.95152 -14 CACAACCCTATGTTACCACGTTTTCTTCTCTTG 14 71 0 TTACCCGTTT 0.726398 -82 AGCTCTTTCGCGGTACCACCTTTTTTCATGAAC 15 206 0 CTACCCCTTT 0.975166 -95 CGCGAAAGAGCTTTTCGTCCTTTTACAGGGATG 15 227 1 CTTCGCCTTT 0.943562 -74 CTTTTATTTCCTCCCTCTACCTAGAGC 16 33 0 TTTCCCCCTC 0.87382 -17 TTTCTTTCCGCGGTACCACCCTTGTTTACGGCC 17 139 0 CTACCCCCTT 0.984434 -162 AAAGAAAAGCCTTTTCGCCCCTTTTAGCTATCG 17 165 1 CTTCGCCCTT 0.964191 -136 TTTAGTTCCTCCTTTTGGATTTTCA 17 286 0 TTTCCCCTTT 0.95152 -15 CGTTTTCCCGCGGTACCACCCTCGTTAGCGCGG 18 150 0 CTACCCCCTC 0.932683 -151 AAAACGAAAGTCTCTCGTCCCTTTTTGGGATGA 18 177 1 TCTCGCCCTT 0.902514 -124 * **** ***** Masking position 12 Map Score: 25.2073 Number of sites scoring better than the average of aligned sites = 378 Number in coding regions = 243 Number in noncoding regions = 135 Number of orfs with sites within 600 bp upstream = 152 Fraction of orfs with sites within 600 bp upstream = 0.0244137 Motif number 2 AGCTGCAAAAAGTATACAGCCTTTCCTTTAATAATACGC 3 130 0 AGAGTTCTTT 0.90359 -79 TCACCCCAACGGCAAAAAGCCGTTCTATT 4 1 0 GGAGTTCATT 0.847159 -300 TCGATGTTATGGCACAGGGGCATCCGTTTGCCTCTGTGT 4 130 1 GGAGTCCTTT 0.93796 -171 CCGCTAAAAAGGACCAAGGTGATTCCCTTGGTCCTAGAG 5 13 0 GGAGTTCCTT 0.891482 -46 AGAGATCTATAGCGGAAAGGAGTTTATTTTTTCCTTAAA 7 161 0 AGAGTTTTTT 0.896262 -124 GTCCCTTATGGGATGAGAGGGCTTTTTTTATTTTCTGAA 9 250 1 GGAGTTTTTT 0.981101 -51 TCTTTCAATTGTTTGATTGGATTTTATTTTGACAATTTT 10 244 0 GTAGTTTTTT 0.896263 -45 ACCAAAAGGCGTGTCAGTGCGTTTTATTTAAAGAGTTTT 12 67 0 GTAGTTTTTT 0.896263 -234 TCCTTTTACAGGGATGAAGAGCTCTTTTTTCGTTCTCAG 15 244 1 GGGGTCTTTT 0.854915 -57 AGCTAAAAGGGGCGAAAAGGCTTTTCTTTCCGCGGTACC 17 155 0 GGAGTTTTTT 0.9811 -146 GGCTGATTGTGGGCGGAAGGGCTTTTTTTATTGAATAAT 17 210 1 GGGGTTTTTT 0.956426 -91 TCCCAAAAAGGGACGAGAGACTTTCGTTTTCCCGCGGTA 18 168 0 GGAGTTCTTT 0.982552 -133 TCCCTTTTTGGGATGAGGGAGTTTTTTTTAGTTTGGGAA 18 194 1 GGAGTTTTTT 0.981101 -107 AAGTGGACATGTCATACAGGCTTTTATTTGATGATACTG 20 186 1 GTAGTTTTTT 0.896263 -115 CTCTTAATTAAGTTGGCTGTGATTCCTTTACTATTACAA 21 50 0 AGGGTTCTTT 0.798497 -41 ** * * *** *** Masking position 13 Map Score: 18.0176 Number of sites scoring better than the average of aligned sites = 169 Number in coding regions = 135 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 3 CCCCATACCTCCTTTTCCCGC 5 48 0 CCCCATACCC 0.95068 -11 AAGCTTATCTCGCGGTACCACCCTTTTAGAA 9 215 0 CGCGGTACCC 0.997904 -86 CCCGATACCCCTTTGTATGAA 14 142 0 CCCGATACCC 0.988245 -11 AAAGCTCTTTCGCGGTACCACCTTTTTTCAT 15 210 0 CGCGGTACCC 0.997904 -91 CTTTTCTTTCCGCGGTACCACCCTTGTTTAC 17 143 0 CGCGGTACCC 0.997904 -158 TTCGTTTTCCCGCGGTACCACCCTCGTTAGC 18 154 0 CGCGGTACCC 0.997904 -147 ********* * Masking position 6 Map Score: 12.6974 Number of sites scoring better than the average of aligned sites = 12 Number in coding regions = 1 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 4 TTTATAACAAATTTTCAGAAATTAATATTGA 1 107 0 ATTTTCAGAA 0.820282 -112 CAATCCGTTCTTTTTCATTGAGACCATAATA 1 176 0 TTTTTCATTA 0.680375 -43 TCTGTATGCGATTTGCATTCAAAAATGAACA 4 176 0 ATTTGCATTA 0.476889 -125 TAATTTCTCATTTTTCAATTAAAACAATAAA 4 264 0 TTTTTCAATA 0.769095 -37 TTCGCTTTACATTTTCATCAA 8 1 0 ATTTTCATCA 0.722513 -300 TTCATCGCTGATTTTCAATAAATGTATTCGC 8 27 0 ATTTTCAATA 0.830912 -274 TCCACTGCATTTTTTCAGAAAATAAAAAAAG 9 271 0 TTTTTCAGAA 0.754377 -30 TTTTCGGATATTTTTCAACAATATTCGAAAT 10 70 0 TTTTTCAACA 0.732837 -219 TATTTATCTTATTTGCAAAAACAGCCCATAA 10 205 1 ATTTGCAAAA 0.754981 -84 CAGTAAAATGATTTTCAAAGATGTAAGAGGG 12 110 1 ATTTTCAAAA 0.913887 -191 GTGTGCAAATTTTTTCATACAAAGGGGTATC 14 129 1 TTTTTCATAA 0.821339 -24 TTGGAGGTCAATTTCCAAAGAGTGTATAGTG 19 77 1 ATTTCCAAAA 0.626109 -78 ATAAAGATTCATTTTCAAAAACATACGCCGA 20 11 1 ATTTTCAAAA 0.912261 -290 TGACAGCGGGTTTTTCATACAGCTGTTTCAT 20 156 0 TTTTTCATAA 0.821339 -145 GAATATAATTATTTTCAAATAAGTTTGATAA 22 89 1 ATTTTCAAAA 0.913887 -52 ********* * Masking position 7 Map Score: 10.5722 Number of sites scoring better than the average of aligned sites = 559 Number in coding regions = 436 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 156 Fraction of orfs with sites within 600 bp upstream = 0.0250562 Motif number 5 TATCCTCCTTTTTCCTTTTTTCAATACCACA 6 42 0 TTCCTTTTTT 0.944669 -25 TGCATGATCTGCACCTTTTTTATCT 10 5 0 GCCCTTTTTT 0.973523 -284 TGCAGATCATGCACCTTTTTTATGTGAATTC 10 23 1 GCCCTTTTTT 0.973523 -266 CAGGCCGCCCTCACCTTGTTTTGTTCTTTCG 10 174 0 TCCCTTGTTT 0.833507 -115 AATTCATATGGCTCGTTTTTTATCTTATCAT 12 160 0 GCCGTTTTTT 0.927341 -141 GCTGATTATTTTACCTTTTTTAAATCGCAAT 12 256 0 TTCCTTTTTT 0.944669 -45 GTGCAGATGTTTGCGTTTATTCTGCAAA 13 8 0 TTCGTTTATT 0.547596 -117 TATCTTTTCATTTCCTTTATTGTCCAGCGGA 14 27 1 TTCCTTTATT 0.777137 -126 CTCTCTGCATGCGCCTTTTTTGTACTCTTCC 15 45 0 GCCCTTTTTT 0.973523 -256 TTTCGCGGTACCACCTTTTTTCATGAACTCA 15 203 0 CCCCTTTTTT 0.893961 -98 AAAGTCTCTCGTCCCTTTTTGGGATGAGGGA 18 183 1 GTCCTTTTTG 0.757243 -118 GCTCAAAAAGTTTCATTTTTTCCCTAATCTC 20 57 0 TTCATTTTTT 0.598654 -244 AAAATTCCCTTCCCGTTTTTTCGACAATCAC 20 109 0 TCCGTTTTTT 0.91679 -192 ** ******** Masking position 6 Map Score: 11.3059 Number of sites scoring better than the average of aligned sites = 469 Number in coding regions = 347 Number in noncoding regions = 122 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647 Motif number 6 TTGATGATAGTCCTTTCTGCTATGATGTCT 4 206 0 TCCTTTCTGC 0.818352 -95 AAAAATAAACTCCTTTCCGCTATAGATCTC 7 169 1 TCCTTTCCGC 0.978703 -116 TGATCTTTCTGTTTTTCAGCTTGTCCAATA 7 200 1 GTTTTTCAGC 0.744813 -85 TGACAAAATATTTTTTCCGCTGGACAATAA 14 43 0 TTTTTTCCGC 0.898755 -110 AACATAAGAAGCCTTTCAGCAAACGGCTTC 15 77 0 GCCTTTCAGC 0.937923 -224 AGGACGAAAAGCTCTTTCGCGGTACCACCT 15 218 0 GCTCTTTCGC 0.655022 -83 TCATGGATATTTCTATCCGCTTTAGTAACG 17 94 0 TTCTATCCGC 0.7543 -207 GAAAAGGCTTTTCTTTCCGCGGTACCACCC 17 151 0 TTCTTTCCGC 0.960257 -150 GGAAAGAAAAGCCTTTTCGCCCCTTTTAGC 17 163 1 GCCTTTTCGC 0.93087 -138 AATAAAAAAAGCCCTTCCGCCCACAATCAG 17 212 0 GCCCTTCCGC 0.971053 -89 AGAGACTTTCGTTTTCCCGCGGTACCACCC 18 162 0 GTTTTCCCGC 0.76074 -139 ********** Masking position 10 Map Score: 7.5407 Number of sites scoring better than the average of aligned sites = 713 Number in coding regions = 643 Number in noncoding regions = 70 Number of orfs with sites within 600 bp upstream = 62 Fraction of orfs with sites within 600 bp upstream = 0.00995824 Motif number 7 AGCTCTAGGACCAAGGGAATCACCTT 5 7 1 AGGACCAAGG 0.799075 -52 CCCGCTAAAAAGGACCAAGGTGATTCCCTT 5 23 0 AGGACCAAGG 0.799075 -36 CATCCCATAAGGGACGAGAAAGCTTATCTC 9 235 0 GGGACGAGAA 0.956244 -66 CGTCCCTTATGGGATGAGAGGGCTTTTTTT 9 249 1 GGGATGAGAG 0.936999 -52 TCCCTGTAAAAGGACGAAAAGCTCTTTCGC 15 228 0 AGGACGAAAA 0.895924 -73 TCCTTTTACAGGGATGAAGAGCTCTTTTTT 15 244 1 GGGATGAAGA 0.903161 -57 ATAGCTAAAAGGGGCGAAAAGGCTTTTCTT 17 166 0 GGGGCGAAAA 0.807942 -135 TGATCTTTAAAGGATGAAAATCCAAAAGGA 17 272 1 AGGATGAAAA 0.786035 -29 ATCCCAAAAAGGGACGAGAGACTTTCGTTT 18 178 0 GGGACGAGAG 0.972107 -123 GTCCCTTTTTGGGATGAGGGAGTTTTTTTT 18 193 1 GGGATGAGGG 0.941566 -108 ********** Masking position 7 Map Score: 5.51391 Number of sites scoring better than the average of aligned sites = 278 Number in coding regions = 220 Number in noncoding regions = 58 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 8 GTAAGCGTTCGTGAGAGGAGATGAATGAAAC 4 93 1 GTGAGGGAGA 0.851432 -208 CTAACCTACTGTGAGTTCAGCAAGGAAACTA 9 134 0 GTGAGTCAGC 0.96153 -167 ACAAAACAAGGTGAGGGCGGCCTGTATTTAT 10 181 1 GTGAGGCGGC 0.995453 -108 CAACTCTGAGGTGAGTTCGGAAACAAACTTG 18 58 0 GTGAGTCGGA 0.96153 -243 AAAGTATCAAGTGAGTGCGGCGTATGCCGCG 18 124 1 GTGAGGCGGC 0.995453 -177 TACCACCCTCGTTAGCGCGGCATACGCCGCA 18 139 0 GTTAGGCGGC 0.971319 -162 ***** ***** Masking position 4 Map Score: 4.03678 Number of sites scoring better than the average of aligned sites = 67 Number in coding regions = 61 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 9 ATGAAAGATTTGTATCCTTCTTTTATAACAAA 1 127 0 TGTATCTTTT 0.70387 -92 AAGGAAAGGCTGTATACTTTTTGCAGCTTTAA 3 141 1 TGTATATTTT 0.708026 -68 TTCACATAATTGTTTAAATATTCAGTCTTTTT 3 171 0 TGTTTAATTT 0.824384 -38 TGCCTCTGTGTTTTTTGTTGTTCATTTTTGAA 4 158 1 TTTTTTTTTT 0.519571 -143 CACTGATGGATGTTTTATTGTTTTAATTGAAA 4 251 1 TGTTTTTTTT 0.915534 -50 AGCGGAAAGGAGTTTATTTTTTCCTTAAAATC 7 158 0 AGTTTATTTT 0.527866 -127 TAAGCGGTGTTGTATTAGTTTTTTACAACTTC 8 102 1 TGTATTGTTT 0.44179 -199 ATGAGAGGGCTTTTTTTATTTTCTGAAAAAAT 9 262 1 TTTTTTATTT 0.422961 -39 TGTTCTTTCGTGTTTTTATATTTATATAGCTT 10 152 0 TGTTTTATTT 0.880187 -137 GCCCTCACCTTGTTTTGTTCTTTCGTGTTTTT 10 167 0 TGTTTTTTTT 0.915534 -122 GAGGGCGGCCTGTATTTATCTTATTTGCAAAA 10 193 1 TGTATTATTT 0.720055 -96 TCTTAATTGATGTTTACATTTTGAATTGCGAT 12 232 1 TGTTTAATTT 0.824384 -69 ATGCTCAAAAAGTTTCATTTTTTCCCTAATCT 20 58 0 AGTTTCTTTT 0.522874 -243 TTCATACAGCTGTTTCATTAATTGCAGCATAT 20 142 0 TGTTTCTTAT 0.522874 -159 TGATACTGCTTGTTTTGTTTTTTATGTATGGT 20 217 1 TGTTTTTTTT 0.915534 -84 GCTGTTAAATTGTTTATATTATCAAACTTATT 22 106 0 TGTTTAATAT 0.431098 -35 ****** ** ** Masking position 5 Map Score: 3.9012 Number of sites scoring better than the average of aligned sites = 718 Number in coding regions = 587 Number in noncoding regions = 131 Number of orfs with sites within 600 bp upstream = 139 Fraction of orfs with sites within 600 bp upstream = 0.0223257 Motif number 10 TAGGTGTGAAGCGGCGTATTATTAAAGGAA 3 117 1 GCGGCGTATT 0.953899 -92 TGTACAGCAGGCAGCTTATGAAGATGCCTT 7 49 1 GCAGCTTATG 0.641843 -236 CAAGGTGAGGGCGGCCTGTATTTATCTTAT 10 187 1 GCGGCCTGTA 0.893822 -102 TATCCATGAGACGGCCGATTAACAGGCCGT 17 115 1 ACGGCCGATT 0.878424 -186 ACCCTTGTTTACGGCCTGTTAATCGGCCGT 17 125 0 ACGGCCTGTT 0.910507 -176 CAGTTACTGCGCGGCTGATTGTGGGCGGAA 17 198 1 GCGGCTGATT 0.869345 -103 CAGAGAGTTGACGGCTGGTGAAAGTCAATC 18 29 1 ACGGCTGGTG 0.865997 -272 TCAAGTGAGTGCGGCGTATGCCGCGCTAAC 18 130 1 GCGGCGTATG 0.970586 -171 CTGATTGAATACGGCGTGTATGGTTCAAGT 18 266 0 ACGGCGTGTA 0.845734 -35 AATTAATATATCGGCGTATGTTTTTGAAAA 20 22 0 TCGGCGTATG 0.810607 -279 TGTCCACTTGACAGCGGGTTTTTCATACAG 20 165 0 ACAGCGGGTT 0.590239 -136 ATATGCAGCCGCGTCCTATGAGATGC 21 7 0 GCGTCCTATG 0.656523 -84 ********** Masking position 9 Map Score: 4.40012 Number of sites scoring better than the average of aligned sites = 840 Number in coding regions = 779 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 11 CCGCCCTTATCAAACTGTCAATATTAATTTC 1 90 1 CAACTGTCAA 0.827615 -129 TCATAAGCTGCCTGCTGTACAGCATTATGTA 7 39 0 CCGCTGTACA 0.824408 -246 TGATGTCATTCAAGCTGTCATTATCACTAAT 7 237 0 CAGCTGTCAT 0.926337 -48 TCGAGATGTCCCTGATGTCATTCAAGCTGTC 7 249 0 CCGATGTCAT 0.795661 -36 AAGTTCCATGCCAGCTCTTAAGGGTGCTGTC 13 62 0 CCGCTCTTAA 0.744583 -63 CCGGCCAAGTCCTACTGTCATTTCAGACTGG 17 47 0 CCACTGTCAT 0.885118 -254 GGCCGATTAACAGGCCGTAAACAAGGGTGGT 17 127 1 CAGCCGTAAA 0.731999 -174 TTGACTTTCACCAGCCGTCAACTCTCTGCAA 18 26 0 CCGCCGTCAA 0.976917 -275 GTATGAAAAACCCGCTGTCAAGTGGACATGT 20 167 1 CCGCTGTCAA 0.989942 -134 GGTCAATCTCCCTGCTGTTAAATTGTTTATA 22 120 0 CCGCTGTTAA 0.95747 -21 ** ******** Masking position 8 Map Score: 3.2877 Number of sites scoring better than the average of aligned sites = 534 Number in coding regions = 496 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 12 ACCATATTTGTTATGACCAATTTATGATACTTG 1 40 1 TTTACAATTT 0.956876 -179 ATGATACTTGTCATTACGAATTTAGCACCGCCC 1 63 1 TCTACAATTT 0.838301 -156 TATCCTTCTTTTATAACAAATTTTCAGAAATTA 1 114 0 TTTACAATTT 0.956876 -105 AAATCTGACATTTCGACAAATTTTCTATGTGCT 7 130 0 TTCACAATTT 0.838301 -155 CAAGCTGTCATTATCACTAATTCTACCATATTG 7 225 0 TTTACAATTC 0.948193 -60 TTGTATTAGTTTTTTACAACTTCGAAATAATAC 8 111 1 TTTACACTTC 0.849208 -190 TTGGATTTTATTTTGACAATTTTCAGTTTATTT 10 234 0 TTTACATTTT 0.890388 -55 GTTCATATATTTATAACGATTTCTAATTGGAGA 20 268 1 TTTACATTTC 0.870134 -33 TCATATGAATTTCTTACAAATTTGAGCAAACCT 22 26 1 TTTACAATTT 0.956876 -115 ** * ** ***** Masking position 6 Map Score: 3.05241 Number of sites scoring better than the average of aligned sites = 50 Number in coding regions = 35 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 13 TGGTCTCAATGAAAAAGAACGGATTGCATACAGAAT 1 181 1 GAAAACGGTG 0.972087 -38 AGAATATTCTGAAATTTATAGGTGTGAAGCGGCGTA 3 99 1 GAAAAAGGTG 0.983998 -110 AAAAACGGTTGAAAGGGACAGTCATGTTTCCTTCAG 9 34 1 GAAAAAGTTG 0.952733 -267 AGTTCAGCAAGGAAACTAAAGGGCTGATCTACATGA 9 116 0 GGAAAAGGTG 0.963563 -185 ATTTTACTGTGAAACCAAAAGGCGTGTCAGTGCGTT 12 83 0 GAAAAAGGTG 0.984 -218 TTACATCTTTGAAAATCATTTTACTGTGAAACCAAA 12 100 0 GAAAATTTTG 0.67554 -201 GAACTCATAAGAAACCTAACGATATGAGCGTCAGTT 12 198 0 GAAAACGATG 0.818738 -103 TTATTGCAACGGAATAAATAGGTGTGCAAATTTTTT 14 108 1 GGAAAAGGTG 0.963563 -45 AAGAAACAGATATTGTTGCAGAGAGTTG 18 3 1 GAAAAATTTG 0.850376 -298 GGTGAGTTCGGAAACAAACTTGATTGACTTTCACCA 18 44 0 GAAAATTGTG 0.863995 -257 **** * *** ** Masking position 8 Map Score: 4.28089 Number of sites scoring better than the average of aligned sites = 121 Number in coding regions = 101 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 14 AGAACCACCATTCCCTTCTTAAAACACAT 2 15 0 ATTCCCTTCT 0.955361 -19 TGTTGATGATAGTCCTTTCTGCTATGATGT 4 208 0 AGTCCTTTCT 0.776592 -93 AAACATTACAATTCCCTCTTACATCTTTGA 12 124 0 ATTCCCTCTT 0.768943 -177 GTAAGTCCCTCCTATGTCCTTGG 12 288 0 AGTCCCTCCT 0.965518 -13 CTTTTATTTCCTCCCTCTACCTAGA 16 35 0 ATTTCCTCCC 0.901738 -15 TTTAGTTCCTCCTTTTGGATTTT 17 288 0 AGTTCCTCCT 0.901738 -13 TCAATATGCATTCCTTTCCATAGGTTAAT 19 10 1 ATTCCTTTCC 0.776592 -145 CATATCAAAAATTCCCTTCCCGTTTTTTCG 20 117 0 ATTCCCTTCC 0.946389 -184 GCGGCTGCATATTTCCTGCTAAGATTTGTA 21 25 1 ATTTCCTGCT 0.759603 -66 ********** Masking position 7 Map Score: 3.32839 Number of sites scoring better than the average of aligned sites = 221 Number in coding regions = 125 Number in noncoding regions = 96 Number of orfs with sites within 600 bp upstream = 111 Fraction of orfs with sites within 600 bp upstream = 0.0178285 Motif number 15 TTTTATGCCAATGGAGAGATTGTT 7 5 0 ATGGAGAGAT 0.944933 -280 GTACAGCATTATGTAGAGATTTTATGCCAA 7 24 0 ATGTAGAGAT 0.811991 -261 CGACCCGGAGATGGTGAGAGTCCGGGATGG 9 80 1 ATGGTGAGAG 0.926082 -221 AAAAAGGCGCATGCAGAGAGAGAAGCCGTT 15 56 1 ATGCAGAGAG 0.972117 -245 ACAGATATTGTTGCAGAGAGTTGACGGCTG 18 16 1 TTGCAGAGAG 0.949202 -285 CGATTTCTAATTGGAGAGAGAATAACT 20 284 1 TTGGAGAGAG 0.964562 -17 ********** Masking position 7 Map Score: 1.84583 Number of sites scoring better than the average of aligned sites = 46 Number in coding regions = 35 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802