AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00052_bsub_reg_100.orf -o00052_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 Input sequences: #1 ybfT 218 similar to glucosamine-6-phosphate isomerase #2 ycdF 106 similar to glucose 1-dehydrogenase #3 ycdG 24 similar to oligo-1,6-glucosidase #4 mtlA 172 phosphotransferase system (PTS) mannitol-specific enzyme IIABC component #5 treP 192 phosphotransferase system (PTS) trehalose-specific enzyme IIBC component #6 glvA 300 6-phospho-alpha-glucosidase #7 yfiA 64 similar to hypothetical proteins #8 yjmC 104 similar to malate dehydrogenase #9 ptsG 238 phosphotransferase system (PTS) glucose-specific enzyme IIABC component #10 fruR 279 transcriptional regulator (DeoR family) #11 yngA 300 yngA #12 ypqE 137 similar to phosphotransferase system enzyme II #13 yqgQ 109 yqgQ #14 levD 189 phosphotransferase system (PTS) fructose-specific enzyme IIA component #15 pfk 183 6-phosphofructokinase #16 msmR 217 transcriptional regulator (LacI family) #17 msmE 33 multiple sugar-binding protein #18 ytdA 171 alternate gene name: yzwA; similar to UTP-glucose-1-phosphate uridylyltransferase #19 yugK 103 similar to NADH-dependent butanol dehydrogenase #20 yugJ 229 similar to NADH-dependent butanol dehydrogenase #21 yvfL 39 similar to maltodextrin transport system permease #22 yvfK 140 similar to maltose/maltodextrin-binding protein #23 gtaB 245 UTP-glucose-1-phosphate uridylyltransferase #24 sacP 300 phosphotransferase system (PTS) sucrose-specific enzyme IIBC component #25 galK 80 galactokinase #26 ywcC 300 alternate gene name: ipa-33d #27 licB 127 phosphotransferase system (PTS) lichenan-specific enzyme IIB component #28 galE 114 UDP-glucose 4-epimerase #29 bglP 300 phosphotransferase system (PTS) beta-glucoside-specific enzyme IIABC component Motif number 1 GTATAGGGACTGTAAGCGTTTTAACATAGAGTC 4 79 1 TGTACGTTTA 0.942084 -94 CAGACTAGGATGAAAGCGCTATAAAAAAGTGTT 5 91 1 TGAACGTATA 0.755242 -102 ACGACCTCCTTGATAACGTTTACAATTCCATTT 6 275 0 TGAACGTTAC 0.985047 -26 AAAGGGCAAATGTAAACGGTTAAACTGGAAGAC 9 144 1 TGTACGTTAA 0.892911 -95 CTAAAAATCATGACAACGAATTCACAGGCGTAA 9 177 0 TGAACGATTC 0.980869 -62 GCGTTTACAATGAAATTGTATTCAAAATGAATA 10 235 1 TGAATGATTC 0.717728 -45 CACCTCCTAATGAAAACGTATTCATTTTGAATA 10 253 0 TGAACGATTC 0.980869 -27 ATTTGTTGATATGGATTACTATAGCGGAC 11 282 0 TGAAGGTTAC 0.828827 -19 CTGGCTTTTTTGTCAGCGTTTTCTTCTTGACTG 13 32 1 TGTACGTTTC 0.980869 -78 GAAATAACAATGAAAACGCTTAACACAACTGTG 14 111 1 TGAACGTTAA 0.954338 -79 AAACAATTATTGTAACCGCTTACTTTTATATGA 16 133 1 TGTACGTTAC 0.963345 -85 GGCTGGTTCGTGATTCCGCTTTCTGCCCAGTTG 18 66 1 TGATCGTTTC 0.906768 -106 TCGGTAGGAATGAAAGCGCTTTAAAGATAATAT 22 104 0 TGAACGTTTA 0.976061 -37 CACATTTTTATGATATCGGATAAACCATTTTTA 23 146 0 TGAACGATAA 0.892911 -100 TCATAAATCATGATAGCGTTTTCGTCAACTATT 24 128 0 TGAACGTTTC 0.992279 -173 TGATTTATGATGAAAGCGTATTCTTAATCTGAA 24 151 1 TGAACGATTC 0.980869 -150 TGAGTGTTTATGAAAGCGATTTCATAATATGAT 27 52 1 TGAACGTTTC 0.992279 -76 ATTCGTGAGATGTCAACGCTTTCATTTTTGGTG 29 50 0 TGTACGTTTC 0.980869 -251 *** * ** **** Masking position 1 Map Score: 29.9875 Number of sites scoring better than the average of aligned sites = 231 Number in coding regions = 157 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706 Motif number 2 TATAGGGACTGTAAGCGTTTTAACATAGAGT 4 80 1 GTAACGTTTT 0.897803 -93 AGACTAGGATGAAAGCGCTATAAAAAAGTGT 5 92 1 GAAACGCTAT 0.960989 -101 CAACCCCTCCGTATCCGTTTTTATAACTTGT 5 170 0 GTATCGTTTT 0.830545 -23 AAATGGAATTGTAAACGTTATCAAGGAGGTC 6 275 1 GTAACGTTAT 0.785982 -26 TTACGCCTGTGAATTCGTTGTCATGATTTTT 9 177 1 GAATCGTTGT 0.851546 -62 CAATTTCATTGTAAACGCTATTTTCGGTTTA 10 222 0 GTAACGCTAT 0.913986 -58 TATTCAAAATGAATACGTTTTCATTAGGAGG 10 253 1 GAATCGTTTT 0.91911 -27 CAGTCAAGAAGAAAACGCTGACAAAAAAGCC 13 34 0 GAAACGCTGA 0.927704 -76 GCTTCCTTATGAATACGCTTATGATAGTTAA 13 68 1 GAATCGCTTA 0.93413 -42 AAATAACAATGAAAACGCTTAACACAACTGT 14 112 1 GAAACGCTTA 0.962148 -78 AACAATTATTGTAACCGCTTACTTTTATATG 16 134 1 GTAACGCTTA 0.916419 -84 GCTGGTTCGTGATTCCGCTTTCTGCCCAGTT 18 67 1 GATTCGCTTT 0.725319 -105 CGGTAGGAATGAAAGCGCTTTAAAGATAATA 22 105 0 GAAACGCTTT 0.983313 -36 AATAGTTGACGAAAACGCTATCATGATTTAT 24 128 1 GAAACGCTAT 0.960989 -173 TTCAGATTAAGAATACGCTTTCATCATAAAT 24 153 0 GAATCGCTTT 0.970481 -148 ATCATATTATGAAATCGCTTTCATAAACACT 27 54 0 GAAACGCTTT 0.983313 -74 CACCAAAAATGAAAGCGTTGACATCTCACGA 29 50 1 GAAACGTTGA 0.816004 -251 **** ****** Masking position 9 Map Score: 23.8748 Number of sites scoring better than the average of aligned sites = 491 Number in coding regions = 382 Number in noncoding regions = 109 Number of orfs with sites within 600 bp upstream = 113 Fraction of orfs with sites within 600 bp upstream = 0.0181497 Motif number 3 TTCATTCTCCCCATTCTGTATGCAATCCGTT 1 10 1 CCCTTCTTAT 0.639608 -209 CTGTATGCAATCCGTTCTTTTTCATTGAGACC 1 26 1 TCCTTCTTTT 0.587595 -193 CTACAGGTTCTCTGCTTTTTTTGTGCTGTTTT 2 25 1 TCTCTTTTTT 0.758749 -82 ACTTGATATCCTCCTCTGTTTCTCACTATGC 2 86 0 CCTCTCTTTT 0.942165 -21 CCGCAATCCCCCTGTTTTGTCTT 3 2 0 CCTTTTTTCT 0.724733 -23 AACCAGGAGCCTTTTTATTTTTAAAAAATTG 4 10 1 CCTTTTATTT 0.925058 -163 GTGCCAAAGTCCTCTTTACTTTCAATTGTATA 4 52 1 CCTTTTATTT 0.925058 -121 ATAAACCCTCCCTGTTTTGTTTGTCGCTGTAA 4 149 0 CCTTTTTTTT 0.964963 -24 TTTAGGGTAACCTTGTCTGTTTCATATATTCC 5 60 1 CCTGTCTTTT 0.703 -133 ATCAGATCCCCCCATTTTCTTTCTATTATATA 7 43 0 CCCTTTTTTT 0.941413 -22 GTGCCTCCTTCCTTTTCAGTTTTTTGGGCACT 8 79 0 CCTTTCATTT 0.893223 -26 AAGAATTGACCTCCTCTTTTTACTAGTCTGA 9 218 0 CCTCTCTTTT 0.942165 -21 TACGACATTTTCTTCTTATTTTAATGAAAAAA 10 73 0 TCTCTTATTT 0.584991 -207 GATCTGGGTTCCCCTTTATTTTTCCAACATAA 16 54 1 CCCTTTATTT 0.878076 -164 TTGGCTGCTTCCCTTTTTCTTTTTTGTCAACT 19 30 1 CCCTTTTTTT 0.941413 -74 GACATCTCCTCCTTAGATTTTTTATTATG 20 211 0 CCTCTTAATT 0.5273 -19 CTCTATTTACCCTTTTCAATATGTTTTTACAC 23 176 0 CCTTTCATAT 0.576868 -70 GTCTTTTCCTGCTTTCTTTCATGATTGAG 24 8 1 CCTCTTTTTT 0.960061 -293 ACACAGCGATCCTTTTTCATTTACGCAAATTT 24 221 0 CCTTTTCTTT 0.766275 -80 GAATTTTAGGTCTTTTTTGTTTAAATAAAAGG 24 268 1 TCTTTTTTTT 0.782769 -33 CTATTTCTCCCCCTTTTATTTAAACAAAAAA 24 280 0 CCCTTTTTTT 0.941413 -21 TAAAAAATGACCTGTTTTCATTATATAGTGTT 28 79 0 CCTTTTTATT 0.740369 -36 CCGCCTTTCACCAGCTTTTTTTGTATCAAATG 29 235 0 CCACTTTTTT 0.645284 -66 GTGTATACCTCCTTTTTATGGGGGGACTG 29 282 0 CCTCTTTTAT 0.796647 -19 *** **** *** Masking position 6 Map Score: 22.0754 Number of sites scoring better than the average of aligned sites = 1022 Number in coding regions = 729 Number in noncoding regions = 293 Number of orfs with sites within 600 bp upstream = 310 Fraction of orfs with sites within 600 bp upstream = 0.0497912 Motif number 4 ATATGAAAGATTTGTATCCTTCTTTTATAACAAATT 1 79 1 TTTTCTTTTT 0.814331 -140 CACCATATTTGTTATGACCAATTTATGATACTTGTC 1 165 0 GTTTCATTAT 0.921515 -54 AGAACTACAGGTTCTCTGCTTTTTTTGTGCTGTTTT 2 21 1 GTTTCTTTTT 0.730883 -86 GAAGCATCATTCTCTGAACATATTTTTGTATCTTAC 4 117 1 TCTTCATTTT 0.894368 -56 TTTTATAACTTGTATATACAACTTATAATCATATTG 5 147 0 TGTTCATTAT 0.865702 -46 AGAGATTTGGTTTTTTTACCTTTTTTGTAATCTTAA 6 130 0 TTTTCCTTTT 0.91817 -171 ACAAACACATTTTATTTACAAATTATTTTAAATATT 8 26 0 TTTTCATTAT 0.949904 -79 TCCAAAAGTTTCTATACACAATTTTTTTAATGATGT 11 41 0 TCTTCATTTT 0.894368 -260 TAAACGGAGTGTTAGCCCCATCTTATCAATGAATAA 11 115 0 GTTGCATTAT 0.673807 -186 GCTTTTTCATGTTTTGTTCATATTTTATTAATTGTT 11 235 1 GTTTCATTTT 0.921515 -66 GCCACCGCCTTTTTTAACCAGATTATGCGTCTATGC 12 15 1 TTTTCATTAT 0.949904 -123 ACACTTTCAATTTTGCTTCAATTTATAACAACATCT 12 52 0 TTTGCATTAT 0.769369 -86 CAGCCAAACGGCTATTTCCCCTTTTT 19 1 0 GCTTCCTTTT 0.756242 -103 TCCCTTTTTCTTTTTTGTCAACTTATGTTACAATGG 19 39 1 TTTTCATTAT 0.949904 -65 AAGTAAATAGTTTGTTTACACATTTTCTCAGGCATG 22 66 1 TTTTCATTTT 0.949904 -75 ATTTGTCACCTGGTTTTCTGCTATAGT 23 2 1 TTTTCTTTTT 0.814331 -244 CTTTTCAATATGTTTTTACACATTTTTATGATATCG 23 161 0 TGTTCATTTT 0.865702 -85 TTTACGAATTTTTGTCTACATGTTATATCAAACTAT 24 81 1 TTTTCATTAT 0.949904 -220 CTATTTCTCCCCCTTTTATTTAAACAAAA 24 282 0 TTTTCCTTAT 0.91817 -19 TGGTTTTTATTTTTTATTCCCCTTATTTCTTCATAG 25 40 0 TTTTCCTTAT 0.91817 -41 CAGCCTGTATATACCTTTTTTCCGTTGCTGC 27 6 1 TGTTCCTTTT 0.792292 -122 TCCTGCTGTTGCTATCATCATATTATGAAATCGCTT 27 65 0 GCTTCATTAT 0.839816 -63 *** * ** **** Masking position 13 Map Score: 23.6261 Number of sites scoring better than the average of aligned sites = 422 Number in coding regions = 330 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 104 Fraction of orfs with sites within 600 bp upstream = 0.0167041 Motif number 5 GTTCAGAGAATGATGCTTCCCTTTGACTCTAT 4 104 0 TGAGCTTCCT 0.763075 -69 GCAAGTGCCTCCTTCCTTTTCAGTTTTT 8 87 0 GCCCCTTCCT 0.988892 -18 TGACAAAAAAGCCAGCTTCCTTTCCATATTCC 13 15 0 GCCGCTTCCT 0.991957 -95 CTTCTTGACTGACCGCTTCCTTATGAATACGC 13 54 1 GACGCTTCCT 0.932303 -56 ATCTATTGCTCCTTTCCTGTTTTGTACA 14 172 0 TGCCCTTTCT 0.843676 -18 CCCATCACCCTTCCTTATTCGCTTAC 16 5 1 TCACCTTCCT 0.799575 -213 ATAGCCGTTTGGCTGCTTCCCTTTTTCTTTTT 19 22 1 GGCGCTTCCT 0.986277 -82 GCGAGGGCAGGCCAGCTTCCCTCATATGGAGA 20 83 0 GCCGCTTCCT 0.991957 -147 TTAAAAGGCACCTTCCTTATGATCGAAA 23 228 0 GGCCCTTCCT 0.981088 -18 GTCTTTTCCTGCTTTCTTTCATGATTGA 24 7 1 TCCGCTTTCT 0.927693 -294 TTTAGGTTTTGCCTGCTTTCGCAGTAACAATC 29 127 0 GCCGCTTTCC 0.872264 -174 GTGAAAGGCGGCCACCTTTCATCCAGCAGTCC 29 256 1 GCCCCTTTCT 0.966345 -45 *** ****** * Masking position 7 Map Score: 18.0068 Number of sites scoring better than the average of aligned sites = 350 Number in coding regions = 303 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 6 GAACTTCCCGTTTTTTTCCCTCAATCACTGATGC 9 60 0 TTTTTTTTAA 0.90116 -179 GCTCATGCCTTTTTGTTGTGTAAAAGGGCAAATG 9 122 1 TTTTGTTTAA 0.744196 -117 ATGCATGAGGTTTTTTTATGTTTAGTGATTTCTA 10 22 1 TTTTTTTTTA 0.844095 -258 ACATTTTCTTCTTATTTTAATGAAAAAAGTCTTT 10 67 0 CTTATTTTAA 0.763105 -213 TTGTCCTTATTTTTGTCGAATTTACAGTTTACAA 10 108 1 TTTTGTCTTA 0.435491 -172 TTTGAATGATTTTAGTTGCCTAAACCGAAAATAG 10 202 1 TTTAGTTTAA 0.746412 -78 AAACAGTTTTTTCATATGAACCTGTATTAA 14 7 1 TTTTTTCTAA 0.802773 -183 TACAGGTTTATTTTTTTCGTTTTAAGTGTTTCAA 14 58 1 TTTTTTTTTA 0.844095 -132 TTAAAAACAATTTATTTAATTGTATAATAGGTAA 15 67 1 TTTATTTTTA 0.857013 -117 TAAGTCATTTTTTATTTAGGTAAAAAAATTTACT 22 27 1 TTTATTTTAA 0.907098 -114 CTTATATCATTTTATTTGAATCAAGAATGAAATG 23 86 0 TTTATTTTAA 0.852713 -160 TCGTCAACTATTTTTTTAGTTAAATAGTTTGATA 24 106 0 TTTTTTTTAA 0.901116 -195 CACAATCCCGCTTATTCAGATTAAGAATACGCTT 24 164 0 CTTATTCTAA 0.589922 -137 AATTTTAGGTCTTTTTTGTTTAAATAAAAGGGGG 24 269 1 CTTTTTTTAA 0.744212 -32 GGCTAAATGATTTATTTTCATTTACATACTATCC 26 165 0 TTTATTTTTA 0.857054 -136 TTTAGCGGTATTTATTTCTTTAAACGGTTATGCT 26 228 0 TTTATTTTAA 0.909827 -73 GACGGGTCGTTTTATTTGTTTGTAGGTATACTTT 29 91 0 TTTATTTTTA 0.857055 -210 TTTAGGTTTTTTTATTCTCTTTTAGGAGGTGATG 29 198 1 TTTATTCTTA 0.728057 -103 TTTCACCAGCTTTTTTTGTATCAAATGCTGCATC 29 228 0 TTTTTTTTAA 0.901144 -73 ******* * ** Masking position 6 Map Score: 17.2774 Number of sites scoring better than the average of aligned sites = 394 Number in coding regions = 235 Number in noncoding regions = 159 Number of orfs with sites within 600 bp upstream = 166 Fraction of orfs with sites within 600 bp upstream = 0.0266624 Motif number 7 GCTCTATGGGAAAAAACACTAAAGTTGATCAAA 6 194 1 AAAAACCTAA 0.897031 -107 ATTTACAGTTTACAAACCCTATAGACATACGTT 10 127 1 TAAAACCTTA 0.56423 -153 ATAAAATATGAACAAAACATGAAAAAGCGGGTA 11 230 0 AAAAAAATAA 0.832226 -71 GACAGTGTTGAATAAACAATTAATAAAATATGA 11 252 0 AAAAACATAA 0.945226 -49 CTATTGGCTGAAATAACAATGAAAACGCTTAAC 14 102 1 AATAACATAA 0.647445 -88 AAATTTTATTTAAAAACAATTTATTTAATTGTA 15 58 1 TAAAACATTA 0.719482 -126 ATCATTGCCCTAAAAACAATGAAAAGGGATCTC 15 119 0 TAAAACATAA 0.847101 -65 CATTCTGCATAATAAAAAATCTAAGGAGGAGAT 20 204 1 AAAAAAATTA 0.696637 -26 AAAATGTGTAAACAAACTATTTACTTCATAGAG 22 59 0 AAAAACATTA 0.888752 -82 AAATAAGGGGAATAAAAAATAAAAACCAGAAAG 25 48 1 AAAAAAATAA 0.832226 -33 TATTTATAATAATAAACAATTAAATACTGACTG 26 133 1 AAAAACATAA 0.945226 -168 AAAAAATATGAAAAAACTATTAATAAACGATTA 28 14 1 AAAAACATAA 0.945226 -101 AAAAGAGAATAAAAAAACCTAAATGACACAGAT 29 188 0 AAAAAACTAA 0.714622 -113 ** **** ** ** Masking position 6 Map Score: 7.13991 Number of sites scoring better than the average of aligned sites = 153 Number in coding regions = 118 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 8 GTCATAACAAATATGGTGCTTGTCTATCTCT 1 183 1 ATATGTGCTT 0.922247 -36 TATGTTCAGAGAATGATGCTTCCCTTTGACT 4 108 0 GAATGTGCTT 0.83482 -65 GTTTAATCATATATGTTGCTGAGGTGAATGG 15 160 1 ATATGTGCTG 0.94953 -24 TAAAACCTCCAAATGATGCTGGTAAAAAACA 19 81 0 AAATGTGCTG 0.96793 -23 AAATGATTTAAAATGATGCATTTTCATGTAG 23 60 0 AAATGTGCAT 0.95007 -186 ACGGCAGATCATATGCTGCAGTCCTC 25 6 0 ATATGTGCAG 0.94953 -75 GGCAAAACCTAAATGGTGCAGGTGCAGGAGG 29 146 1 AAATGTGCAG 0.96793 -155 TTTTTGTATCAAATGCTGCATCACCTCCTAA 29 219 0 AAATGTGCAT 0.95007 -82 ***** ***** Masking position 3 Map Score: 6.39001 Number of sites scoring better than the average of aligned sites = 180 Number in coding regions = 161 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 9 ACTTGATATCCTCCTCTGTTTCTC 2 93 0 GATATCCTCC 0.716026 -14 ATATAAACCCTCCCTGTTTTGTT 4 160 0 TAAACCCTCC 0.915564 -13 GCCAACCCCTCCGTATCCGTTT 5 181 0 CAACCCCTCC 0.971257 -12 GCTTCACCTCCTAATGAAAAC 10 269 0 CTTCACCTCC 0.733312 -11 AATCGAACACTAACTCCTCCAAAAGTTTCT 11 64 0 TAACTCCTCC 0.931264 -237 AGTAAAACCTCCAAATGATGCT 19 92 0 TAAAACCTCC 0.873351 -12 GACATCTCCTCCTTAGATTTTT 20 218 0 CATCTCCTCC 0.945778 -12 GATGTAAACCCTCCTAAAAAATGA 28 101 0 TAAACCCTCC 0.915564 -14 TCAAATGCTGCATCACCTCCTAAAAGAGAA 29 212 0 CATCACCTCC 0.945778 -89 ********** Masking position 8 Map Score: 5.47877 Number of sites scoring better than the average of aligned sites = 102 Number in coding regions = 63 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 10 TTCATTCTCCCCATTCTGTA 1 1 1 TTCATTCTCC 0.9696 -218 AAACGGGAAGTTCATTCTCGTTCTTTTGCG 9 81 1 TTCATTCTCG 0.840735 -158 CCGTTATCCCTTCATTCACCACTATTTAAC 12 89 0 TTCATTCACC 0.952111 -49 AAAAGGGATCTCCATCCTCCCTATGAAACC 15 101 0 TCCATCCTCC 0.951212 -83 TCTCCATTCACCTCAGCAACAT 15 172 0 TCCATTCACC 0.955481 -12 GTTTTGCAACCTCCTCCATGAATT 20 5 1 TGCAACCTCC 0.912255 -225 AATCTATACATGCATTCTCCATATGAGGGA 20 68 1 TGCATTCTCC 0.980451 -162 GTGCAATCACCTTTCTGGTTT 25 70 0 TGCAATCACC 0.919645 -11 ********** Masking position 4 Map Score: 4.62189 Number of sites scoring better than the average of aligned sites = 143 Number in coding regions = 112 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 11 AGATTTGTATCCTTCTTTTATAACAAATTT 1 86 1 CCTTCTTTTA 0.715791 -133 ATGACTGTGACAATTTTTTAAAAATAAAAA 4 22 0 CAATTTTTTA 0.764074 -151 GAATTGACCTCCTCTTTTTACTAGTCTGAC 9 217 0 CCTCTTTTTA 0.715791 -22 ATCGCCACCGCCTTTTTTAACCAGATTATG 12 12 1 CCTTTTTTAA 0.914214 -126 ACGAACCAGCCCTTTTTTAATAGGATATTG 18 47 0 CCTTTTTTAA 0.914214 -125 GGACACTAAGTCATTTTTTATTTAGGTAAA 22 21 1 TCATTTTTTA 0.82554 -120 ATCGGATAAACCATTTTTAAACAAGCTTTA 23 135 0 CCATTTTTAA 0.914214 -111 TTTCGTCAACTATTTTTTTAGTTAAATAGT 24 112 0 TATTTTTTTA 0.510904 -189 TTATATTAGTCATTTTTTTAGGGAATAGGT 26 92 0 CATTTTTTTA 0.764074 -209 TTCCCAGGGGTCATTTTTAATAGGCTAAAT 26 191 0 TCATTTTTAA 0.774638 -110 CGGTCCACATCCATTTTTAAGAAGTTTAAT 28 43 0 CCATTTTTAA 0.914214 -72 TGAAAACAGGTCATTTTTTAGGAGGGTTTA 28 91 1 TCATTTTTTA 0.82554 -24 ********** Masking position 10 Map Score: 4.9677 Number of sites scoring better than the average of aligned sites = 698 Number in coding regions = 552 Number in noncoding regions = 146 Number of orfs with sites within 600 bp upstream = 153 Fraction of orfs with sites within 600 bp upstream = 0.0245744 Motif number 12 CTTTTTTATAGCGCTTTCATCCTAGTCTGG 5 90 0 GCGCTTTCAT 0.96599 -103 GTACAAAAGAACCTTTTCATAAGAATTGGA 6 61 1 ACCTTTTCAT 0.677264 -240 CAATTGTACGACATTTTCTTCTTATTTTAA 10 81 0 ACATTTTCTT 0.511482 -199 CATTTTGAATACAATTTCATTGTAAACGCT 10 234 0 ACAATTTCAT 0.444926 -46 CAAAATGAATACGTTTTCATTAGGAGGTGA 10 257 1 ACGTTTTCAT 0.947283 -23 CGGTATACCCGCTTTTTCATGTTTTGTTCA 11 225 1 GCTTTTTCAT 0.815945 -76 TTTTTTGTCAGCGTTTTCTTCTTGACTGAC 13 37 1 GCGTTTTCTT 0.942746 -73 ACTATCATAAGCGTATTCATAAGGAAGCGG 13 66 0 GCGTATTCAT 0.907103 -44 GTTGTGTTAAGCGTTTTCATTGTTATTTCA 14 110 0 GCGTTTTCAT 0.982537 -80 TATCTTTAAAGCGCTTTCATTCCTACCGAA 22 108 1 GCGCTTTCAT 0.96599 -33 TTAAAATGATGCATTTTCATGTAGAATATG 23 54 0 GCATTTTCAT 0.918042 -192 AATCATGATAGCGTTTTCGTCAACTATTTT 24 126 0 GCGTTTTCGT 0.906179 -175 TATGATGAAAGCGTATTCTTAATCTGAATA 24 156 1 GCGTATTCTT 0.740781 -145 GTTTATGAAAGCGATTTCATAATATGATGA 27 57 1 GCGATTTCAT 0.926503 -71 TGAGATGTCAACGCTTTCATTTTTGGTGTT 29 48 0 ACGCTTTCAT 0.900709 -253 ********** Masking position 6 Map Score: 19.0309 Number of sites scoring better than the average of aligned sites = 278 Number in coding regions = 234 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 13 TGCATACAGAATGGGGAGAATGAA 1 5 0 ATGGGGAGAA 0.968659 -214 TTTCCACTGCATAGTGAGAAACAGAGGAGG 2 78 1 ATAGTGAGAA 0.887234 -29 ACATACGTTAATATGGAGAAACGTGAAAGA 10 151 1 ATATGGAGAA 0.845939 -129 AGTTCAAGAAATGGTGAGGAAA 13 98 1 ATGGTGAGGA 0.928781 -12 GTAAGGTTTCATAGGGAGGATGGAGATCCC 15 97 1 ATAGGGAGGA 0.968659 -87 CATCACGATGATAAGGAGGAAAAG 17 20 1 ATAAGGAGGA 0.800358 -14 AGCTTCCCTCATATGGAGAATGCATGTATA 20 72 0 ATATGGAGAA 0.845939 -158 TGCTTTACATGTGGTGAGGACATTCTGCAT 20 184 1 GTGGTGAGGA 0.752903 -46 TTTAAATAAAAGGGGGAGAAATAG 24 287 1 AGGGGGAGAA 0.878364 -14 ********** Masking position 7 Map Score: 3.55016 Number of sites scoring better than the average of aligned sites = 198 Number in coding regions = 130 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 14 TGAATTCGTTGTCATGATTTTTAGCTGTAA 9 186 1 GTCATGATTT 0.707025 -53 TCGTACAATTGTCCTTATTTTTGTCGAATT 10 100 1 GTCCTTATTT 0.926128 -180 TCACGAACCAGCCCTTTTTTAATAGGATAT 18 49 0 GCCCTTTTTT 0.810908 -123 AGGACACTAAGTCATTTTTTATTTAGGTAA 22 20 1 GTCATTTTTT 0.944263 -121 GGATCGCTGTGTCCTTTATTCGTTGGCGAA 24 241 1 GTCCTTTATT 0.720877 -60 GGTTATATTAGTCATTTTTTTAGGGAATAG 26 94 0 GTCATTTTTT 0.944263 -207 ATAACCAATGGACCTTATTTATAATAATAA 26 118 1 GACCTTATTT 0.664018 -183 ATACTATCCAGTCAGTATTTAATTGTTTAT 26 144 0 GTCAGTATTT 0.707025 -157 TTTCCCAGGGGTCATTTTTAATAGGCTAAA 26 192 0 GTCATTTTTA 0.704476 -109 ATGAAAACAGGTCATTTTTTAGGAGGGTTT 28 90 1 GTCATTTTTT 0.944263 -25 ********** Masking position 9 Map Score: 2.80367 Number of sites scoring better than the average of aligned sites = 138 Number in coding regions = 108 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 15 GAAAATACCCTGTTTTTCCGAGTTGAAAAC 2 52 0 TGTTTTTCCG 0.823188 -55 TCATAAATTCAGTTTATCCTTATAACGTGT 9 15 1 AGTTTATCCT 0.747525 -224 TTTTAAACAAGCTTTATCCTTAATATTAAA 23 121 0 GCTTTATCCT 0.790707 -125 GTTTAAAAATGGTTTATCCGATATCATAAA 23 143 1 GGTTTATCCG 0.957218 -103 GCAAATTTTAGGTCTTGCCTGCTTTACCAG 24 199 0 GGTCTTGCCT 0.846335 -102 ATAGGTAGGTGGTTTTTCCTTCAGTTTGTG 26 68 0 GGTTTTTCCT 0.973418 -233 AAACACTCAGGGTTTTTCCGCAGCAACGGA 27 31 0 GGTTTTTCCG 0.972895 -97 GCACCATTTAGGTTTTGCCTGCTTTCGCAG 29 135 0 GGTTTTGCCT 0.953994 -166 ********** Masking position 5 Map Score: 2.24248 Number of sites scoring better than the average of aligned sites = 248 Number in coding regions = 212 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665