AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00930_bsub_reg_300.orf -o00930_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 cwlJ 300 alternate gene name: ycbQ #2 ycbR 105 similar to toxic cation resistance protein #3 phoD 278 phosphodiesterase/alkaline phosphatase D #4 phoB 300 alkaline phosphatase III #5 phoA 300 alkaline phosphatase A #6 yjlC 300 yjlC #7 yjlD 39 similar to NADH dehydrogenase #8 yjmA 197 similar to glucuronate isomerase #9 yjmB 67 similar to Na+:galactoside symporter #10 yjmC 104 similar to malate dehydrogenase #11 adhA 300 NADP-dependent alcohol dehydrogenase #12 hemA 163 glutamyl-tRNA reductase #13 yugK 103 similar to NADH-dependent butanol dehydrogenase #14 yugJ 229 similar to NADH-dependent butanol dehydrogenase #15 slr 245 transcriptional regulator #16 pnbA 75 para-nitrobenzyl esterase (intracellular esterase B) Motif number 1 TTGTTATGTATAATTCCTCAAATGTAAAAAGTTAAACCT 1 24 1 TAATATAAAA 0.891415 -277 ACTTCTGAAGTAATGAAATATGATGAAAAGAGATCAAGG 1 260 1 TAAATAAAAA 0.93062 -41 TGCTTCTTTTTAAGATCATGTGAAGAAAAATAGGCCGAA 3 56 1 TAAATAAAAA 0.93062 -223 GAACTGATTGTAAGCGCTGAACATTAAAAACAGGTCTTC 3 178 0 TAATAAAAAA 0.93062 -101 CAACATAAAGGAAATAAATGAAAAACTTTCGGGG 5 6 1 TAAAAAAAAA 0.891415 -295 GACAGAGAGGTAAAGATTTTTCTGAAAAATGAATGCTTT 5 140 1 TAATTTAAAA 0.93062 -161 TTACATCAAATAAGGCAAGATAACGAAAAGCGTTTTTTC 5 177 1 TAAATAAAAA 0.93062 -124 TTCTATATGATAACACTTTTTGAACAAAATTTGAACGTG 6 14 0 TAATTAAAAA 0.956363 -287 ATGACAGCGTTAACATTTCATTTTCAAAAAAGAGATTGA 8 85 1 TAATTTAAAA 0.93062 -113 TATAAAGGTAAAATAAAAACAAATCAAAATGTTAACGTT 8 135 1 AAAAAAAAAA 0.671221 -63 AGAATATTTAAAATAATTTGTAAATAAAATGTGTTTGTA 10 24 1 AAATTAAAAA 0.844968 -81 AGGTTCATTTTAAATGGTTTTTTTAAAAAACCCTTGCCT 11 168 1 TAATTTAAAA 0.93062 -133 TTCTTCATCATAAGTGTTGTAAATAAAAACATGCACTTA 11 259 0 TAATAAAAAA 0.93062 -42 TTTTCCATTGTAACATAAGTTGACAAAAAAGAAAAAGGG 13 40 0 TAAATAAAAA 0.93062 -64 CCCTTTCTGTTAATGATTGGATTATAAAAGAAAACGTTA 15 53 1 TAATATAAAA 0.891415 -193 ATTATAAAAGAAAACGTTATTATTTAAAAATTGCAAAAT 15 73 1 AAATTTAAAA 0.769358 -173 *** * * * **** Masking position 16 Map Score: 15.3912 Number of sites scoring better than the average of aligned sites = 256 Number in coding regions = 154 Number in noncoding regions = 102 Number of orfs with sites within 600 bp upstream = 127 Fraction of orfs with sites within 600 bp upstream = 0.0203983 Motif number 2 CTTACAATCAGTTCACACTTCTTCACAGTC 3 203 1 GTTCACACTT 0.962437 -76 ATTCACGTTCAAATTTTGTTCAAAAA 6 7 1 GTTCAAATTT 0.834786 -294 CCTTCTATATGATAACACTTTTTGAACAAA 6 25 0 GATAACACTT 0.824084 -276 AAACTGGGTAGTAAACATTTATTTTTGTAA 6 165 1 GTAAACATTT 0.892156 -136 TTATGACAGCGTTAACATTTCATTTTCAAA 8 83 1 GTTAACATTT 0.978797 -115 AAATGTTAACGTTAACATTTTGATTTGTTT 8 151 0 GTTAACATTT 0.978797 -47 AAATGTTAACGTTAACATTTTGAAATAGAA 8 161 1 GTTAACATTT 0.978797 -37 TTTAAAATCTGTTCACATTTTGTGAAAGAA 12 59 1 GTTCACATTT 0.978377 -105 ********** Masking position 5 Map Score: 9.25013 Number of sites scoring better than the average of aligned sites = 29 Number in coding regions = 15 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 3 TTTTTAAATTTATTCATCTAAAAACAGCAAAC 1 206 0 TATTATTAAA 0.867108 -95 TGAACGGTGTTTTTCTTTGAAAAGATGCAATG 2 31 1 TTTTTTGAAA 0.77795 -75 GCCAGTTCATTATTCTTGTAAATCCAATCTTT 4 196 1 TATTTTTAAA 0.933997 -105 ACAACCCAATTATATTTTTAAACTGTTAAGCT 4 244 0 TATATTTAAA 0.547768 -57 ATCCGCAGTTTTTTTATTTAAACAAACATATC 5 101 1 TTTTATTAAA 0.753958 -200 ATCTTGCCTTATTTGATGTAAAGCATTCATTT 5 166 0 ATTTATTAAA 0.644764 -135 CACGTTCAAATTTTGTTCAAAAAGTGTTATCA 6 14 1 TTTTTTAAAA 0.744114 -287 TTCAGTATTATTTTTATCTAAAAATAAACAAT 6 119 0 TTTTATTAAA 0.753958 -182 AGTAAACATTTATTTTTGTAAATGATTGTGCA 6 174 1 TATTTTTAAA 0.933997 -127 AGTTTGCTGATTTTTTTGGAAAGGGTAGTGCC 6 255 0 TTTTTTGAAA 0.77795 -46 CTCAGATTCAAATTGATATAAAGGACGGAGGA 7 12 1 AATTATTAAA 0.699468 -28 TTTATTTACAAATTATTTTAAATATTCTTTAT 10 20 0 AATTTTTAAA 0.83216 -85 TTTTAAATGGTTTTTTTAAAAAACCCTTGCCT 11 175 1 TTTTTTAAAA 0.744114 -126 ACTATGTTATAATTATTATAAATAATGAGTTC 12 89 1 AATTTTTAAA 0.83216 -75 AAGAAAACGTTATTATTTAAAAATTGCAAAAT 15 80 1 TATTTTAAAA 0.805169 -166 GCACTTCCCTTATTATTTTAAATTTTATAAAG 15 165 1 TATTTTTAAA 0.933997 -81 **** ** **** Masking position 7 Map Score: 13.6166 Number of sites scoring better than the average of aligned sites = 489 Number in coding regions = 322 Number in noncoding regions = 167 Number of orfs with sites within 600 bp upstream = 195 Fraction of orfs with sites within 600 bp upstream = 0.0313203 Motif number 4 ATTTCTTTTCGGAGGCGGGTGCAAATCTGCTGGGGAG 1 64 1 GAGGGGCAAC 0.978113 -237 ATCCAGGAATTGAGGCTGCGGCGCTTCGACAGCGGAA 1 116 1 TAGGGGCCTC 0.795284 -185 AGCAAACATAATGGGCTGTTGGGCATCAAAGCAGCGT 1 176 0 AGGGGGGCAC 0.983746 -125 AATAGGCCGAATGGGCGGCTTGCAAACGACAGGATAT 3 84 1 AGGGGTGAAC 0.959563 -195 CAAGATGTAAGCGGGTTGCTTCTATGCGACTATAGCA 4 47 1 GGGGGTCATC 0.956047 -254 CTGGCCGTGGATAGGCGGACTGAAATCTGCTATAGTC 4 74 0 AAGGGTGAAC 0.914829 -227 AAAGCGTGAGACAGGGAGAGGCACTACCCTTTCCAAA 6 236 1 AAGGGGCCTC 0.949242 -65 AAAAAAGAAAAAGGGAAGCAGCCAAACGGCTATTTCC 13 18 0 AGGGGGCAAC 0.98659 -86 AATAATTCATGGAGGAGGTTGCAAAAC 14 1 0 GAGGGGCAAC 0.978113 -229 TTCTCCATATGAGGGAAGCTGGCCTGCCCTCGCTTAT 14 82 1 GGGGGGGCTC 0.98202 -148 GAAGCCAGCCGCGGGAAGGCTGAAGGCTATGAATAC 15 10 0 GGGGGTGAGC 0.947459 -236 CATTAACAGAAAGGGGCGCGGGAAGCCAGCCGCGGGA 15 31 0 AGGGGGGAGC 0.976559 -215 * *** * ** ** * Masking position 17 Map Score: 11.5433 Number of sites scoring better than the average of aligned sites = 233 Number in coding regions = 191 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 5 TTCTCCTGTCCCTCCGTCATCACTTCTGAA 1 239 1 CCTCCGTCAT 0.589639 -62 AAAAACAGGTCTTCCCTCACAAGCCTGCTG 3 162 0 CTTCCCTCAC 0.851159 -117 ACTATCGCTCTTTCCTTCTAAAACTTCTCA 4 140 1 TTTCCTTCTA 0.365434 -161 TTTTCATTTATTTCCTTTATGTTG 5 5 0 TTTCCTTTAT 0.853324 -296 TTTTCGTTATCTTGCCTTATTTGATGTAAA 5 176 0 CTTGCCTTAT 0.666405 -125 GCCTCCTTTAATGTATTCCGT 5 290 0 CCTCCTTTAA 0.737068 -11 ATCCAATTCTCCTTTACTATAAGCAGT 6 284 0 TCTCCTTTAC 0.633192 -17 GTATATCCTCCGTCCTTTATATCAATTTGA 7 19 0 CGTCCTTTAT 0.624661 -21 CAAGTGCCTCCTTCCTTTTCAGTTTTTTGG 10 84 0 CTTCCTTTTC 0.607432 -21 TTAAAAAACCCTTGCCTTAAAGCAGACTTT 11 190 1 CTTGCCTTAA 0.392789 -111 CAAACGGCTATTTCCCCTTTTT 13 3 0 TTTCCCCTTT 0.72117 -101 CGTTTGGCTGCTTCCCTTTTTCTTTTTTGT 13 27 1 CTTCCCTTTT 0.851956 -77 GTTTTGCAACCTCCTCCATGAATTATTAA 14 10 1 CCTCCTCCAT 0.870547 -220 GGCAGGCCAGCTTCCCTCATATGGAGAATG 14 80 0 CTTCCCTCAT 0.935996 -150 GACATCTCCTCCTTAGATTTTTTA 14 216 0 TCTCCTCCTT 0.543245 -14 AAATCATGATTTTCCTCTAATTTACTGCAC 15 139 1 TTTCCTCTAA 0.624117 -107 ATTTACTGCACTTCCCTTATTATTTTAAAT 15 158 1 CTTCCCTTAT 0.943157 -88 AATATGAAATTCTCCTCTATTCCTGTCGTT 15 226 0 TCTCCTCTAT 0.795533 -20 TATAAACAGATTTCCCCTATAGATGCGAAC 16 31 0 TTTCCCCTAT 0.881758 -45 TCTCTCCCTTTTTCCCCCATTATAAACAGA 16 51 0 TTTCCCCCAT 0.867945 -25 ********** Masking position 3 Map Score: 10.7586 Number of sites scoring better than the average of aligned sites = 1650 Number in coding regions = 1287 Number in noncoding regions = 363 Number of orfs with sites within 600 bp upstream = 420 Fraction of orfs with sites within 600 bp upstream = 0.067459 Motif number 6 TTATTCATCTAAAAACAGCAAACATAATGGGCTG 1 195 0 AAAAAGCAAA 0.948491 -106 CTGAAGTAATGAAATATGATGAAAAGAGATCAAG 1 264 1 GAAATGAGAA 0.554487 -37 TAATCAAAGAAAAAAGAGCTGACGGAGATGACAG 2 81 1 AAAAAGCGAG 0.865717 -25 CATGATCTTAAAAAGAAGCAAAAACACCGAGCCA 3 42 0 AAAAAGCAAA 0.948491 -237 CATGTGAAGAAAAATAGGCCGAATGGGCGGCTTG 3 72 1 AAAAGGCGAT 0.845231 -207 GCCTGCTGCTGAAACATGCCGAAAGCTGGCTGAA 3 136 0 GAAATGCGAA 0.940461 -143 GTTTAAATAAAAAAACTGCGGATAACCACAGCTC 5 90 0 AAAATGCGAA 0.939399 -211 TACTCTCTCTGAAAATAGCAAACACAAAAAACTC 6 66 0 GAAAAGCAAA 0.949403 -235 CCTTTCCAAAAAAATCAGCAAACTGCTTATAGTA 6 263 1 AAAAAGCAAT 0.804906 -38 AAAAAGGGGAAATAGCCGTTTGGC 13 1 1 AAAAGGGAAA 0.738065 -103 AAGGTGCTGGGAAAGAAGCTGATATAAGCGAGGG 14 108 0 GAAAAGCGAA 0.972133 -122 TAAAAATTGCAAAATAAGCCAATAAGTTCTCTTT 15 97 1 AAAAAGCAAA 0.948491 -149 TATAATGGGGGAAAAAGGGAGAGAACACA 16 57 1 GAAAGGGGAA 0.842223 -19 **** *** ** * Masking position 4 Map Score: 7.3839 Number of sites scoring better than the average of aligned sites = 983 Number in coding regions = 865 Number in noncoding regions = 118 Number of orfs with sites within 600 bp upstream = 135 Fraction of orfs with sites within 600 bp upstream = 0.0216833 Motif number 7 AGAGTAAAGGATTTTGACTTATTCAATTGTT 6 94 1 ATTTGACTTA 0.807271 -207 AAGAATAAGGATTGTGAATTCATGCACAATC 6 197 0 ATTTGAATTC 0.556179 -104 TAACGTTAACATTTTGAAATAGAATGAAAGA 8 167 1 ATTTGAAATA 0.910476 -31 TAGCATAAGAATTTTAAAATCTGTTCACATT 12 47 1 ATTTAAAATC 0.790308 -117 ATTTATAATAATTATAACATAGTTTCTTTCA 12 81 0 ATTTAACATA 0.926457 -83 ATTTATAATCATTCTAACATAGAACTCATTA 12 111 0 ATTTAACATA 0.926457 -53 TGTTAGAATGATTATAAATTAAGATTGGGTG 12 123 1 ATTTAAATTA 0.79451 -41 CAGATTTTCCATTGTAACATAAGTTGACAAA 13 52 0 ATTTAACATA 0.926453 -52 ACAGTTATAGATTGTGACATATTGGAGAATC 14 41 1 ATTTGACATA 0.921759 -189 TAATGATTGGATTATAAAAGAAAACGTTATT 15 63 1 ATTTAAAAGA 0.651192 -183 TTATTTTGCAATTTTTAAATAATAACGTTTT 15 83 0 ATTTTAAATA 0.66087 -163 TTCTTTATAAAATTTAAAATAATAAGGGAAG 15 168 0 AATTAAAATA 0.557352 -78 *** ******* Masking position 7 Map Score: 5.01827 Number of sites scoring better than the average of aligned sites = 103 Number in coding regions = 56 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 8 AAATCTGCTGGGGAGAGGTCAATGATGTGA 1 86 1 GGGAGAGGTC 0.968746 -215 AGAGATCAAGGGGAGGTGACGTG 1 288 1 GGGAGGTGAC 0.845102 -13 AAAGAGCTGACGGAGATGACAGA 2 93 1 CGGAGATGAC 0.958934 -13 GAATGAAAGACGGTGAGGAC 8 188 1 CGGTGAGGAC 0.973941 -10 GGGTTTCGCTTGGAGAGTGCCCAAAAAACT 10 64 1 TGGAGAGTGC 0.734049 -41 GTATGCTGATCGGTGAGAGCTGATTGCTTT 14 160 1 CGGTGAGAGC 0.851905 -70 GCTTTACATGTGGTGAGGACATTCTGCATA 14 185 1 TGGTGAGGAC 0.943143 -45 AAATCTAAGGAGGAGATGTC 14 220 1 AGGAGATGTC 0.71885 -10 GGGGGAAAAAGGGAGAGAACACA 16 63 1 GGGAGAGAAC 0.942185 -13 ********** Masking position 10 Map Score: 2.97674 Number of sites scoring better than the average of aligned sites = 188 Number in coding regions = 150 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 9 CTTCGACAGCGGAAACGTGAAGCTTGTACTGC 1 139 1 GGAAGTGAAG 0.869928 -162 GATGACGGAGGGACAGGAGAAGTTTTTAAATT 1 228 0 GGCAGAGAAG 0.949712 -73 GATGAAAAGAGATCAAGGGGAGGTGACGTG 1 281 1 GACAGGGGAG 0.952667 -20 TTCTTTTTAAGATCATGTGAAGAAAAATAGGC 3 59 1 GACAGTGAAG 0.899173 -220 AATAGATACTGGCCGTGGATAGGCGGACTGAA 4 87 0 GGCGGGATAG 0.716674 -214 AATAAGGCAAGATAACGAAAAGCGTTTTTTCA 5 185 1 GAAAGAAAAG 0.450161 -116 GCTATTTTCAGAGAGAGTAAAGGATTTTGACT 6 81 1 GAAGGTAAAG 0.426822 -220 TAAAAGCGTGAGACAGGGAGAGGCACTACCCT 6 234 1 AGCAGGAGAG 0.667023 -67 GGTGACATTTGGGCAAGAGAAGAAGAACTTTC 11 70 1 GGCAGAGAAG 0.949712 -231 TGACAAAAAAGAAAAAGGGAAGCAGCCAAACG 13 27 0 GAAAGGGAAG 0.927271 -77 AAGCTGATATAAGCGAGGGCAGGCCAGCTTCC 14 95 0 AACGGGGCAG 0.55319 -135 GCGGGAAGCCAGCCGCGGGAAGGCTGAAGGCT 15 19 0 AGCGGGGAAG 0.926319 -227 TAACAGAAAGGGGCGCGGGAAGCCAGCCGCGG 15 33 0 GGCGGGGAAG 0.985784 -213 TTATAATGGGGGAAAAAGGGAGAGAACACA 16 56 1 GGAAAGGGAG 0.478847 -20 ** ** ****** Masking position 11 Map Score: 5.64479 Number of sites scoring better than the average of aligned sites = 677 Number in coding regions = 599 Number in noncoding regions = 78 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 10 AGTTAAACCTTATTTCTTTTCGGAGGCGGGTG 1 53 1 TATTTCTTTG 0.927584 -248 CTTTTCATCATATTTCATTACTTCAGAAGTGA 1 258 0 TATTTCATTT 0.638826 -43 CAATGCAAAATATTCCTGTGAGATAATCAAAG 2 58 1 TATTCCTGTG 0.848278 -48 CGTCAGCTCTTTTTTCTTTGATTATCTCACAG 2 73 0 TTTTTCTTTT 0.719684 -33 TCCTCCAATTTATTTCTTTAGTACTATCGCTC 4 118 1 TATTTCTTTT 0.926309 -183 AAATAATGGTTATTCTTTTATGAGAAGTTTTA 4 158 0 TATTCTTTTG 0.53824 -143 GTTTTTCATTTATTTCCTTTATGTTG 5 5 0 TATTTCCTTT 0.723871 -296 TCCTTTAATGTATTCCGTTTATCATGTTAGGG 5 276 0 TATTCCGTTT 0.869544 -25 TTGCCAAAAGCATTCCTTTCCGAGTGCTTTCT 8 31 1 CATTCCTTTG 0.736234 -167 TTTACCTTTATATTCCTTTGGGATCAATCTCT 8 115 0 TATTCCTTTG 0.946515 -83 GCTGCTTCCCTTTTTCTTTTTTGTCAACTTAT 13 33 1 TTTTTCTTTT 0.719684 -71 TTCCTGTCGTTATTTCGTTCATTATAAGGAAT 15 205 0 TATTTCGTTT 0.828309 -41 AATTCTCCTCTATTCCTGTCGTTATTTCGTTC 15 217 0 TATTCCTGTT 0.845839 -29 ********* * Masking position 4 Map Score: 4.78341 Number of sites scoring better than the average of aligned sites = 338 Number in coding regions = 271 Number in noncoding regions = 67 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 11 ATGTATAATTCCTCAAATGTAAAAAGTTAAA 1 29 1 CCTCAATGTA 0.942963 -272 ACAATGATTTCCTATAATGGAGACGATCAAT 3 238 1 CCTAAATGGA 0.747143 -41 AGTATCTATTCCTCCAATTTATTTCTTTAGT 4 109 1 CCTCAATTTA 0.912026 -192 CTGGATAACCTCCTAAATATAGATGAATC 4 282 0 CCTCTAAATA 0.704117 -19 CCACAGCTCTCCTCGAATATACTTTATCACT 5 68 0 CCTCAATATA 0.81851 -233 ATAATGAAAGCCTTGTAAGGAAATGAAAAAA 5 209 0 CCTTTAAGGA 0.836861 -92 GCCTCCTTTAATGTATTCCGTTTAT 5 286 0 CCTTAATGTA 0.858637 -15 TCCTTTTAATGAATCTGGCATT 8 2 1 CCTTTAATGA 0.762836 -196 AGTAAAACCTCCAAATGATGCTGGTAAA 13 86 0 CCTCAAATGA 0.92339 -18 GGCCAGCTTCCCTCATATGGAGAATGCATGT 14 75 0 CCTCTATGGA 0.950547 -155 TCATGATTTTCCTCTAATTTACTGCACTTCC 15 142 1 CCTCAATTTA 0.912026 -104 ACGAAAAATTCCTTATAATGAACGAAATAAC 15 198 1 CCTTTAATGA 0.76285 -48 **** ****** Masking position 7 Map Score: 8.17155 Number of sites scoring better than the average of aligned sites = 187 Number in coding regions = 141 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269 Motif number 12 AAAAGAAGCAAAAACACCGAGCCATTTCGCA 3 35 0 AAAACACGAG 0.935541 -244 ATATCATGCAAAGACAGAGAGGTAAAGATTT 5 128 1 AAGACAGGAG 0.986119 -173 TTAAAAGCGTGAGACAGGGAGAGGCACTACC 6 233 1 GAGACAGGAG 0.988477 -68 AATAGAATGAAAGACGGTGAGGAC 8 184 1 AAGACGGGAG 0.956253 -14 GAAAATTCTTAAGACACAGAGGTGGAAC 9 50 1 AAGACACGAG 0.967717 -18 TATAAGCTGAGAAACAGTCAGTAATTAATGC 11 133 0 GAAACAGCAG 0.888705 -168 TATAATGGGGGAAAAAGGGAGAGAACACA 16 57 1 GAAAAAGGAG 0.843447 -19 ******* *** Masking position 4 Map Score: 2.57599 Number of sites scoring better than the average of aligned sites = 96 Number in coding regions = 79 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 13 ACCGTTCAATTTGAACGGTGTCCTGTCT 2 9 0 TTGAACGGTG 0.983669 -97 ACCGTTCAAATTGAACGGTGTTTTTCTTTG 2 20 1 TTGAACGGTG 0.983669 -86 TTCTGCGAAATGGCTCGGTGTTTTTGCTTC 3 32 1 TGGCTCGGTG 0.953364 -247 TGGTTTTATTTTGCAAGGTGCTGGGAAAGA 14 126 0 TTGCAAGGTG 0.925706 -104 ATCTGGTATGCTGATCGGTGAGAGCTGATT 14 155 1 CTGATCGGTG 0.949842 -75 ********** Masking position 9 Map Score: 0.946222 Number of sites scoring better than the average of aligned sites = 40 Number in coding regions = 34 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185 Motif number 14 GAAATATGATGAAAAGAGATCAAGGGGAGGT 1 274 1 GAAAAGAATC 0.696832 -27 GCTGAACATTAAAAACAGGTCTTCCCTCACA 3 171 0 AAAAACAGTC 0.816853 -108 TTTTATTTAAACAAACATATCATGCAAAGAC 5 112 1 ACAAACAATC 0.915324 -189 ATAAACATAAAAAAAGACATTGCCAGAAAGC 8 56 0 AAAAAGAATT 0.884275 -142 TTCATTTTCAAAAAAGAGATTGATCCCAAAG 8 101 1 AAAAAGAATT 0.884275 -97 AAGGTAAAATAAAAACAAATCAAAATGTTAA 8 139 1 AAAAACAATC 0.950222 -59 CGAAACCCCTACAAACACATTTTATTTACAA 10 41 0 ACAAACAATT 0.893575 -64 GATGCTGGTAAAAAACAGATTTTCCATTGTA 13 67 0 AAAAACAATT 0.936818 -37 TTCCCCCATTATAAACAGATTTCCCCTATAG 16 39 0 ATAAACAATT 0.754797 -37 ******* *** Masking position 5 Map Score: 2.62819 Number of sites scoring better than the average of aligned sites = 297 Number in coding regions = 255 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 15 AGGCGGGTGCAAATCTGCTGGGGAGAGGTC 1 76 1 AAATCTGCTG 0.883939 -225 ACAGCCCATTATGTTTGCTGTTTTTAGATG 1 194 1 ATGTTTGCTG 0.909875 -107 AACATGCCGAAAGCTGGCTGAATGACGCGT 3 128 0 AAGCTGGCTG 0.849036 -151 CTTCCCTCACAAGCCTGCTGCTGAAACATG 3 152 0 AAGCCTGCTG 0.948687 -127 TTACTATAAGCAGTTTGCTGATTTTTTTGG 6 268 0 CAGTTTGCTG 0.936479 -33 ATTTGCGCCAAAGTTTGCTGAACTTCATGA 11 27 1 AAGTTTGCTG 0.979732 -274 ATAAACCTTAAAGTCTGCTTTAAGGCAAGG 11 199 0 AAGTCTGCTT 0.881774 -102 ********** Masking position 9 Map Score: 3.39985 Number of sites scoring better than the average of aligned sites = 239 Number in coding regions = 219 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295