AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00770_bsub_reg_300.orf -o00770_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 amhX 300 amidohydrolase #5 ydaO 300 similar to hypothetical proteins #6 mutT 58 mutator protein #7 ydaP 66 similar to pyruvate oxidase #8 yheM 284 similar to D-alanine aminotransferase #9 ilvD 288 dihydroxy-acid dehydratase #10 ypgR 59 similar to hypothetical proteins #11 bsaA 300 glutathione peroxidase #12 panB 245 ketopantoate hydroxymethyltransferase #13 ypjH 31 alternate gene name: jojH; similar to lipopolysaccharide biosynthesis-related protein #14 ypjD 300 alternate gene name: jojD #15 ilvB 300 acetolactate synthase (acetohydroxy-acid synthase) (large subunit) #16 alsS 154 alpha-acetolactate synthase (pH6) #17 dltA 300 D-alanyl-D-alanine carrier protein ligase (Dcl) #18 dltE 90 alternate gene name: ipa-1r #19 ywaA 140 alternate gene name: ipa-0r; similar to branched-chain amino acid aminotransferase Motif number 1 CGATGTCTTCCCCTTTTAATTTCTCATTTTTCA 5 278 0 CCCTTTTTTC 0.948823 -23 CCAAGGGAATCACCTTGGTCCTTTTTAGCGGGAA 6 21 1 CCCTTGGCTT 0.815936 -38 CCCCATACCTCCTTTTCCCGCTAAAAAGGACC 6 37 0 CCCTTTTCGT 0.9775 -22 AACGTATCCTCCTTTTTCCTTTTTTCAATACC 7 45 0 CCCTTTTCTT 0.986278 -22 AAAAAATAAACTCCTTTCCGCTATAGATCTCTTG 8 168 1 CCCTTTCCTT 0.912926 -117 GCATGATCTGCACCTTTTTTATCT 9 1 0 CCCTTTTATT 0.97422 -288 GCAGATCATGCACCTTTTTTATGTGAATTCACTT 9 24 1 CCCTTTTATT 0.97422 -265 AGGCCGCCCTCACCTTGTTTTGTTCTTTCGTGTT 9 170 0 CCCTTGTTGT 0.886862 -119 CGCACTGACACGCCTTTTGGTTTCACAGTAAAAT 11 85 1 CCCTTTTTTC 0.948823 -216 ATTCATATGGCTCGTTTTTTATCTTATCATTCTA 11 156 0 CCGTTTTATT 0.86253 -145 TCACACAAAACCCCTTTTCCTTCCATTAGATAGC 14 171 1 CCCTTTTTTC 0.948823 -130 GAGGCGAGTTCACCTTGTAAAGCTTCGCCG 15 7 0 CCCTTGTAGT 0.90617 -294 AGCCTTTTCGCCCCTTTTAGCTATCGCAGTTACT 15 172 1 CCCTTTTCTT 0.986278 -129 TTTAGTTCCTCCTTTTGGATTTTCATCCTTTA 15 279 0 CCCTTTTATT 0.97422 -22 AAATTCCCTTCCCGTTTTTTCGACAATCACATGA 17 105 0 CCGTTTTCGC 0.813434 -196 * ****** ** * Masking position 6 Map Score: 19.5027 Number of sites scoring better than the average of aligned sites = 433 Number in coding regions = 307 Number in noncoding regions = 126 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 2 TTCTGTATGCAATCCGTTCTTTTTCATTGA 1 186 0 AATCCGTTCT 0.842351 -33 AGAACCACCATTCCCTTCTTAAAACACAT 2 15 0 ATTCCCTTCT 0.918096 -19 CAACGGCAAAAAGCCGTTCTATT 5 4 0 AAGCCGTTCT 0.826727 -297 CGTTGGGGTGAATCCTTTTTAGGTAGGGCT 5 29 1 AATCCTTTTT 0.811135 -272 TGTTGATGATAGTCCTTTCTGCTATGATGT 5 208 0 AGTCCTTTCT 0.886144 -93 CCGGGTTTTAAAGCCTTTCTCCTGTGGTAT 7 20 1 AAGCCTTTCT 0.917332 -47 GAAAAAATAAACTCCTTTCCGCTATAGATC 8 167 1 ACTCCTTTCC 0.767635 -118 AAAAGCCCTCCCTTTTCGAGAT 8 273 0 AAGCCCTCCC 0.901524 -12 AAACATTACAATTCCCTCTTACATCTTTGA 11 124 0 ATTCCCTCTT 0.665533 -177 GTAAGTCCCTCCTATGTCCTTGG 11 288 0 AGTCCCTCCT 0.849471 -13 CCTCTGTCCCAGTCCTTTTTTGGATCAAGG 12 111 0 AGTCCTTTTT 0.728992 -135 GAAAGTGAAGAATCCTTCTCGTTGTAACGG 12 162 1 AATCCTTCTC 0.715096 -84 CTTTTGCTTTATGCCCTTTTCCACATCAGC 14 16 0 ATGCCCTTTT 0.775758 -285 GCGGAAAGAAAAGCCTTTTCGCCCCTTTTA 15 161 1 AAGCCTTTTC 0.813562 -140 TCAATAAAAAAAGCCCTTCCGCCCACAATC 15 214 0 AAGCCCTTCC 0.946876 -87 TCAATATGCATTCCTTTCCATAGGTTAAT 16 10 1 ATTCCTTTCC 0.900348 -145 CATATCAAAAATTCCCTTCCCGTTTTTTCG 17 117 0 ATTCCCTTCC 0.927296 -184 ********** Masking position 7 Map Score: 15.4682 Number of sites scoring better than the average of aligned sites = 634 Number in coding regions = 494 Number in noncoding regions = 140 Number of orfs with sites within 600 bp upstream = 163 Fraction of orfs with sites within 600 bp upstream = 0.0261805 Motif number 3 ATCAAACAGCCAGAATAAAAC 3 2 1 TCAAACAGCC 0.827556 -207 TGAAATTAAAGAAAACAGCCAGTTTTATTC 3 23 0 GAAAACAGCC 0.978165 -186 CCAGCAGCCGAAACACAGCCTAAGAAAAAA 4 123 0 AAACACAGCC 0.943186 -178 CACCCCAACGGCAAAAAGCCGTTCTATT 5 9 0 GCAAAAAGCC 0.918936 -292 TCTTATTTGCAAAAACAGCCCATAAATAAA 9 211 1 AAAAACAGCC 0.979551 -78 GGATGAAAAAGAAAACAGCAAACGTGCTTA 14 219 1 GAAAACAGCA 0.861576 -82 GTACCGCGGAAAGAAAAGCCTTTTCGCCCC 15 156 1 AAGAAAAGCC 0.818899 -145 CCTTCCGCCCACAATCAGCCGCGCAGTAAC 15 200 0 ACAATCAGCC 0.756201 -101 ATTATTCAATAAAAAAAGCCCTTCCGCCCA 15 219 0 AAAAAAAGCC 0.955913 -82 AGTATCATCAAATAAAAGCCTGTATGACAT 17 194 0 AATAAAAGCC 0.843255 -107 ATAGTAAAGGAATCACAGCCAACTTAATTA 18 55 1 AATCACAGCC 0.804653 -36 AAATTCATATGAAAAAAGCAGGAGAAA 19 8 0 GAAAAAAGCA 0.738037 -133 ********** Masking position 7 Map Score: 9.99781 Number of sites scoring better than the average of aligned sites = 839 Number in coding regions = 693 Number in noncoding regions = 146 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 4 AAAACAGCCAGTTTTATTCTGGCTGTTTGA 3 12 0 GTTTTATTCT 0.946875 -197 AAAACTGGCTGTTTTCTTTAATTTCAGCTT 3 27 1 GTTTTCTTTA 0.774542 -182 TCGAACACAGGTTTCATTCATCTCCTCTCA 5 104 0 GTTTCATTCA 0.85974 -197 ACTGATGGATGTTTTATTGTTTTAATTGAA 5 252 1 GTTTTATTGT 0.721429 -49 GTGCTTTCCAGTTTTATTCCTGTATACTTG 8 105 0 GTTTTATTCC 0.884578 -180 CCCTCACCTTGTTTTGTTCTTTCGTGTTTT 9 168 0 GTTTTGTTCT 0.926956 -121 GTGTCAGTGCGTTTTATTTAAAGAGTTTTC 11 66 0 GTTTTATTTA 0.786025 -235 AGTTCGGCGAGTTTCATCCCTCTGTCCCAG 12 129 0 GTTTCATCCC 0.595966 -117 ATGATCTGCCGTTTTCTTCTGCAAGCCAAA 12 199 0 GTTTTCTTCT 0.943402 -47 GTTTTCTCCTCCTCATGTTT 12 236 0 GTTTTCTCCT 0.828718 -10 CACGTTTGCTGTTTTCTTTTTCATCCACTA 14 215 0 GTTTTCTTTT 0.868831 -86 ATGATAGGAGGTTTCGTTCA 14 291 1 GTTTCGTTCA 0.813583 -10 TGCTCAAAAAGTTTCATTTTTTCCCTAATC 17 59 0 GTTTCATTTT 0.824449 -242 GATACTGCTTGTTTTGTTTTTTATGTATGG 17 218 1 GTTTTGTTTT 0.834516 -83 ********** Masking position 4 Map Score: 8.75969 Number of sites scoring better than the average of aligned sites = 655 Number in coding regions = 549 Number in noncoding regions = 106 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 5 GTATTATTAAAGGAAAGGCTGTATACTTTTTGCAG 3 132 1 AAAGGTGTAA 0.816279 -77 TTTGCAGCTTTAAAAAGACTGAATATTTAAACAAT 3 160 1 TAAGATGAAA 0.945924 -49 TTGAAACAGGAAGATAGGCTGTATATAATATAGCA 4 219 0 AAAGGTGTAA 0.816279 -82 TGACTGGTAATACATAGGTTGTAAACATAAGGCAT 8 72 0 TAAGGTGTAA 0.959434 -213 TCTACCATATTGGACAAGCTGAAAAACAGAAAGAT 8 202 0 TAAAGTGAAA 0.905461 -83 AGATAAAAAAGGTGCAGATCATGCACCT 9 4 1 TAAAGTGCAA 0.691771 -285 AAACAGCCCATAAATAAACTGAAAATTGTCAAAAT 9 223 1 TAAAATGAAA 0.819351 -66 TCAACACGTATAGATAGATTGAAAATTGGCGTGAA 11 18 0 TAAGATGAAA 0.945938 -283 ATTGTAATGTTTTATAGAATGATAAGATAAAAAAC 11 142 1 TAAGATGATA 0.632641 -159 CTCGCCGAACTTTAGAAAGTGAAGAATCCTTCTCG 12 148 1 TAAAATGAAA 0.819362 -98 GCGTTTATATTATAGTGGATGAAAAAGAAAACAGC 14 203 1 TATGGTGAAA 0.784806 -98 AGACGGCCGATTAACAGGCCGTAAACAAGGGTGGT 15 123 1 TAAGGCGTAA 0.774504 -178 AAAGATGATCTTTAAAGGATGAAAATCCAAAAGGA 15 267 1 TAAGGTGAAA 0.973719 -34 GAGGTCAATTTCCAAAGAGTGTATAGTGAAACTTA 16 80 1 TAAGATGTAA 0.9179 -75 * * *** **** * Masking position 4 Map Score: 9.78857 Number of sites scoring better than the average of aligned sites = 298 Number in coding regions = 237 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 6 TTTATAACAAATTTTCAGAAATTAATATTGA 1 107 0 ATTTTCAGAA 0.781591 -112 CAATCCGTTCTTTTTCATTGAGACCATAATA 1 176 0 TTTTTCATTA 0.732088 -43 AATAATTAATATTTTCAAACAGAGGGGATGG 4 170 0 ATTTTCAAAA 0.938642 -131 TCTGTATGCGATTTGCATTCAAAAATGAACA 5 176 0 ATTTGCATTA 0.523157 -125 TAATTTCTCATTTTTCAATTAAAACAATAAA 5 264 0 TTTTTCAATA 0.840389 -37 TTTTCGGATATTTTTCAACAATATTCGAAAT 9 70 0 TTTTTCAACA 0.84673 -219 TATGGGCTGTTTTTGCAAATAAGATAAATAC 9 204 0 TTTTGCAAAA 0.820839 -85 CAGTAAAATGATTTTCAAAGATGTAAGAGGG 11 110 1 ATTTTCAAAA 0.938642 -191 TGCTGTTTTCTTTTTCATCCACTATAATATA 14 208 0 TTTTTCATCA 0.746824 -93 TTGGAGGTCAATTTCCAAAGAGTGTATAGTG 16 77 1 ATTTCCAAAA 0.742647 -78 ATAAAGATTCATTTTCAAAAACATACGCCGA 17 11 1 ATTTTCAAAA 0.934611 -290 TGACAGCGGGTTTTTCATACAGCTGTTTCAT 17 156 0 TTTTTCATAA 0.87269 -145 GAATATAATTATTTTCAAATAAGTTTGATAA 19 89 1 ATTTTCAAAA 0.938642 -52 ********* * Masking position 7 Map Score: 7.88129 Number of sites scoring better than the average of aligned sites = 586 Number in coding regions = 469 Number in noncoding regions = 117 Number of orfs with sites within 600 bp upstream = 145 Fraction of orfs with sites within 600 bp upstream = 0.0232894 Motif number 7 GTCTATCTCTTTGAGGGGGTGTCAC 1 6 0 TTGAGGGGGT 0.941183 -213 ACAAAACAAGGTGAGGGCGGCCTGTATTTA 9 181 1 GTGAGGGCGG 0.978011 -108 TCTATACGTGTTGAGGGGGAAACAACAGAA 11 39 1 TTGAGGGGGA 0.975864 -262 CATGATGTGCTTGGGGGCGAACA 13 19 1 TTGGGGGCGA 0.965853 -13 AACAATCTGGCTGAGGGCGGTTTTACAGGT 14 52 0 CTGAGGGCGG 0.97801 -249 GCGCGGCTGATTGTGGGCGGAAGGGCTTTT 15 206 1 TTGTGGGCGG 0.967751 -95 ATATATTAATTTGAGGGAGATTAGGGAAAA 17 41 1 TTGAGGGAGA 0.936802 -260 ********** Masking position 2 Map Score: 5.48176 Number of sites scoring better than the average of aligned sites = 67 Number in coding regions = 51 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 8 CTATCTCTTTGAGGGGGTGTCAC 1 4 0 GAGGGGGTGT 0.948972 -215 TTTTCAAACAGAGGGGATGGATCGAAATAT 4 160 0 GAGGGGATGG 0.958027 -141 GCGTTCGTGAGAGGAGATGAATGAAACCTG 5 97 1 GAGGAGATGA 0.966662 -204 GAGAAATTAAAAGGGGAAGACATCG 5 286 1 AAGGGGAAGA 0.837756 -15 TATACGTGTTGAGGGGGAAACAACAGAAAA 11 41 1 GAGGGGGAAA 0.861792 -260 CTCATGTTTAGAGGAGATGATCTGCCGTTT 12 215 0 GAGGAGATGA 0.966662 -31 CTCTAAACATGAGGAGGAGAAAAC 12 232 1 GAGGAGGAGA 0.956192 -14 GAGGGGCTGATGTGGAAAAG 14 1 1 GAGGGGCTGA 0.970944 -300 ********** Masking position 2 Map Score: 6.19706 Number of sites scoring better than the average of aligned sites = 114 Number in coding regions = 66 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 9 CATTGAGACCATAATACCATTTGCCCTCCCAAT 1 159 0 ATTACCATTG 0.878552 -60 TTATTTATGATTGCTTTCATTTGCGCAATCGCT 4 54 0 TTTTTCATTG 0.92454 -247 AACAATCTCTCCATTGGCATAAAATCT 8 5 1 ATCTCCATTG 0.914688 -280 TTATATAGCTTTCTTTCGATTTGAACCCTCCAA 9 130 0 TTTTCGATTG 0.879981 -159 AATTCTTTCAATTGTTTGATTGGATTTTATTTT 9 253 0 ATTTTGATTG 0.876759 -36 TGATTTTGGTATACTTCCATTGGGCAGTATCGC 12 30 1 ATTTCCATTG 0.978673 -216 CGGAGCGGCAATTTTTTCATTTGGCTTGGTTCA 14 95 0 ATTTTCATTG 0.958943 -206 AAAACCCCTTTTCCTTCCATTAGATAGCGTTTA 14 177 1 TTTTCCATTG 0.960114 -124 TTTAAAGATCATCTTTTCATTAGCTAGATAGCT 15 250 0 ATTTTCATTG 0.958943 -51 ** ******* * Masking position 9 Map Score: 5.04546 Number of sites scoring better than the average of aligned sites = 136 Number in coding regions = 120 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 10 GTCAAATTCACCTGCCGGCACAATATATGA 4 24 1 CCTGCCGGCA 0.960466 -277 CTGTGTTTCGGCTGCTGGCATACTCATATT 4 135 1 GCTGCTGGCA 0.815441 -166 AGAAATACCTCCTTCTATCAGAATGAATTT 4 277 0 CCTTCTATCA 0.897459 -24 TCGAGATGTCCCTGATGTCATTCAAGCTGT 8 250 0 CCTGATGTCA 0.873945 -35 AGCCAAAAAACCTTCCGTTACAACGAGAAG 12 176 0 CCTTCCGTTA 0.861718 -70 AACCCCTTTTCCTTCCATTAGATAGCGTTT 14 179 1 CCTTCCATTA 0.637457 -122 TGAACGAAACCTCCTATCATCCTCTTACA 14 282 0 CCTCCTATCA 0.836971 -19 CCGGCCAAGTCCTACTGTCATTTCAGACTG 15 48 0 CCTACTGTCA 0.924678 -253 GTATGAAAAACCCGCTGTCAAGTGGACATG 17 167 1 CCCGCTGTCA 0.943018 -134 GGTCAATCTCCCTGCTGTTAAATTGTTTAT 19 121 0 CCTGCTGTTA 0.957248 -20 ********** Masking position 10 Map Score: 3.53416 Number of sites scoring better than the average of aligned sites = 512 Number in coding regions = 472 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 11 CAGAAATTAATATTGACAGTTTGATAAGGGCGGT 1 89 0 TTTAAGTTGA 0.784039 -130 CTAAAGAATATTCTGAAATTTATAGGTGTGAAGC 3 95 1 TCTAATTTTA 0.931208 -114 GCTGCTGGCATACTCATATTTCGATCCATCCCCT 4 145 1 TCTAATTTGA 0.962579 -156 TTTCCTTAAAATCTGACATTTCGACAAATTTTCT 8 137 0 ACTAATTTGA 0.765884 -148 TAAGTAACAATATTAATAGTTGGAGGGTTCAAAT 9 111 1 TTTAAGTTGA 0.783029 -178 TTCTTTCGTGTTTTTATATTTATATAGCTTTCTT 9 148 0 TTTAATTTTA 0.832569 -141 TCTTAATTGATGTTTACATTTTGAATTGCGATTT 11 232 1 TTTAATTTGA 0.904391 -69 GTTTTCTCCTCCTCATGTTTAGAGGAGATGATC 12 223 0 TCTAGTTTGA 0.828271 -23 CGAATACCGGTTCATATATTTATAACGATTTCTA 17 259 1 TCAAATTTTA 0.631715 -42 GCATATTTCCTGCTAAGATTTGTAATAGTAAAGG 18 31 1 TCTAATTTTA 0.931132 -60 GCAATAGGTTTGCTCAAATTTGTAAGAAATTCAT 19 30 0 TCTAATTTTA 0.931207 -111 * ** * **** ** Masking position 6 Map Score: 3.85576 Number of sites scoring better than the average of aligned sites = 73 Number in coding regions = 51 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 12 TTTAAAAAGACTGAATATTTAAACAATTATG 3 168 1 CTGAATATTA 0.72117 -41 CATAGGCGTCAGGCATTTTAAATGTCATACG 4 92 1 AGGCATTTTA 0.917801 -209 TTCTATCAGAATGAATTTTTACCTTCTTTAC 4 264 0 ATGAATTTTA 0.873255 -37 TGTAAACATAAGGCATCTTCATAAGCTGCCT 8 57 0 AGGCATCTTA 0.902502 -228 AGGAATTTTCACGCCAATTTT 11 1 1 AGGAATTTTA 0.850367 -300 CCAGATTGTTCTGCATATTGAAATGAACCAA 14 72 1 CTGCATATTA 0.835568 -229 ATGGAAAGGAATGCATATTGA 16 1 0 ATGCATATTA 0.912249 -154 ACTCCTTATTATGCATTTTAAACGTAAAATT 16 130 0 ATGCATTTTA 0.931208 -25 GTTTTTGAAAATGAATCTTTAT 17 2 0 ATGAATCTTA 0.851013 -299 ********* * Masking position 6 Map Score: 2.93058 Number of sites scoring better than the average of aligned sites = 135 Number in coding regions = 113 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 13 ATTAAAGGAAAGGCTGTATACTTTTTGCAG 3 137 1 AGGCTGTATA 0.971067 -72 ACAGGAAGATAGGCTGTATATAATATAGCA 4 219 0 AGGCTGTATA 0.971067 -82 CACAGGAGAAAGGCTTTAAAACCCGGAGAC 7 16 0 AGGCTTTAAA 0.902109 -51 GGTAATACATAGGTTGTAAACATAAGGCAT 8 72 0 AGGTTGTAAA 0.902109 -213 GCCGATTAACAGGCCGTAAACAAGGGTGGT 15 128 1 AGGCCGTAAA 0.955878 -173 ********** Masking position 7 Map Score: 1.06415 Number of sites scoring better than the average of aligned sites = 77 Number in coding regions = 67 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 14 TTTCGACAAATTTTCTATGTGCTTTCCAGTTTTATT 8 117 0 TTTTCTTTTC 0.819666 -168 TTTTCAACAATATTCGAAATAATTTTTATAAAAAGT 9 54 0 TATTCATTTT 0.573892 -235 CTATAAATAGTTTTCGGATATTTTTCAACAATATTC 9 75 0 TTTTCATTTC 0.948237 -214 CGTGTTTTTATATTTATATAGCTTTCTTTCGATTTG 9 140 0 TATTTATTTC 0.919918 -149 GATTGGATTTTATTTTGACAATTTTCAGTTTATTTA 9 233 0 TATTTATTTC 0.919918 -56 CAGTGCGTTTTATTTAAAGAGTTTTCTGTTGTTTCC 11 56 0 TATTTATTTC 0.919918 -245 AAAAATATGTTTTTTAATCTAATTTCTCCAAGCATC 14 137 1 TTTTTTTTTC 0.772053 -164 TGTTTTGTTTTTTATGTATGGTTTTCACACCGCGAA 17 227 1 TTTATATTTC 0.634297 -74 CCGGTTCATATATTTATAACGATTTCTAATTGGAGA 17 265 1 TATTTATTTC 0.919918 -36 TCTCCTGCTTTTTTCATATGAATTTCTTACAAATTT 19 13 1 TTTTCATTTC 0.948237 -128 AATATAATTATTTTCAAATAAGTTTGATAATATAAA 19 90 1 TTTTCATTTG 0.703447 -51 ***** * **** Masking position 13 Map Score: 1.9846 Number of sites scoring better than the average of aligned sites = 376 Number in coding regions = 307 Number in noncoding regions = 69 Number of orfs with sites within 600 bp upstream = 87 Fraction of orfs with sites within 600 bp upstream = 0.0139737 Motif number 15 CCTTTGTCACGCGGTCAAAT 4 1 1 CCTTTGTCAC 0.85161 -300 ATGCCTGACGCCTATGTCCTCTTATTTATG 4 78 0 CCTATGTCCT 0.975298 -223 AAGGTGATTCCCTTGGTCCTAGAGCT 6 7 0 CCTTGGTCCT 0.980913 -52 AAGGGAATCACCTTGGTCCTTTTTAGCGGG 6 23 1 CCTTGGTCCT 0.980913 -36 GGTTTTAAAGCCTTTCTCCTGTGGTATTGA 7 23 1 CCTTTCTCCT 0.945793 -44 AACGTATCCTCCTTTTTCCTTTTTTCAATA 7 47 0 CCTTTTTCCT 0.921704 -20 GTAAGTCCCTCCTATGTCCTTGGTGCTGAT 11 281 0 CCTATGTCCT 0.975298 -20 GAGTTTCATCCCTCTGTCCCAGTCCTTTTT 12 121 0 CCTCTGTCCC 0.949474 -125 ********** Masking position 7 Map Score: 9.38918 Number of sites scoring better than the average of aligned sites = 36 Number in coding regions = 29 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432