AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i02010_bbur_reg_300.orf -o02010_bbur_300.ace -a/home/amcguire/genomes/ORF_borburg.txt -z/home/amcguire/genomes/borburg.fna -g0.28 -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 = 0.28 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 BB0146 153 glycine betaine, L-proline ABC transporter, ATP-binding protein (proV) #2 BB0147 50 flagellar filament 41 kDa core protein (flaB) #3 BB0215 162 phosphate ABC transporter, periplasmic phosphate-binding protein (pstS) #4 BB0216 89 phosphate ABC transporter, permease protein (pstC) #5 BB0217 300 phosphate ABC transporter, permease protein (pstA) #6 BB0328 300 oligopeptide ABC transporter, periplasmic oligopeptide-binding protein (oppA-1) #7 BB0329 120 oligopeptide ABC transporter, periplasmic oligopeptide-binding protein (oppA-2) #8 BB0330 142 oligopeptide ABC transporter, periplasmic oligopeptide-binding protein (oppA-3) #9 BB0332 123 oligopeptide ABC transporter, permease protein (oppB-1) #10 BB0642 78 spermidine/putrescine ABC transporter, ATP-binding protein (potA) #11 BB0643 154 conserved hypothetical protein #12 BB0677 242 ribose/galactose ABC transporter, ATP-binding protein (mglA) Motif number 1 TTTAATTGGTATAAATTGTATTAACAAAAGAT 1 19 1 ATAAATTATT 0.811197 -135 GATCTGAAATAAAAAAACAAAAGATCCTTTAA 1 54 0 AAAAAAAAAA 0.783655 -100 TCAGATCGGCAAAAATTTAATAATTTTAGTAT 1 79 1 AAAAATAATA 0.711025 -75 TAATTTTAGTATAATTTATAATGATGTGTTAT 1 99 1 ATAATTTAAT 0.882939 -55 TTCCTCCATGATAAAATTTAAATTTCTGACTT 2 23 0 ATAAATTAAA 0.852103 -28 ATTTATACCAAAAAATTAAAATATTTGCTATT 3 51 1 AAAAATAAAT 0.924103 -112 AACTTAATCAATAAAGTTAATTTGTAATTGAC 3 96 1 ATAAATAATT 0.900669 -67 TATAATAGCATTAATTTAAAATAAGTCAATTA 3 120 0 TTAATTAAAT 0.872596 -43 TTAAATTAAAGAAAAAAAAACTTGACT 4 6 1 TTAAAAAAAA 0.749201 -84 CATGCCAATGTTAAATTGTATTACTTGACTTG 4 44 0 TTAAATTATT 0.648605 -46 CACAACATATATAATAATAAAATTTCACACTG 5 20 1 ATAATAAAAA 0.825873 -281 TGCAATAGGTATAATGTCAATTCCCTGATCTG 5 63 0 ATAATTAATT 0.860817 -238 AAGCTATTCTAAAAACACTAATCAAAAACAAT 5 120 1 AAAAAATAAT 0.767167 -181 GCTATTTAACAAAAAAAGAATTTGAATCCCTA 5 234 1 AAAAAAAATT 0.729548 -67 ATATTGGGATATAATTTAAAATCTAGGGATTC 5 257 0 ATAATTAAAT 0.940977 -44 TATTAAGGCTTTAAAAATAAAAACT 5 286 1 TTAAAAAAAA 0.7492 -15 ACTATACAAATTAAAGTAAAATTTTGGCTTGC 6 66 1 TTAAATAAAT 0.909431 -235 AAAAAGTCTAATAATTTTAAATAGTTTTTAGT 6 115 0 ATAATTAAAT 0.940977 -186 TTTAATTCTTATAATAAAAAAAGTCTAATAAT 6 132 0 ATAATAAAAA 0.825873 -169 ATTATAAGAATTAAAGTAAAATTTAAATACAA 6 149 1 TTAAATAAAT 0.909431 -152 TTATTTTGTTTTAATTTTAAATATGTATGCCT 6 214 0 TTAATTAAAT 0.872596 -87 AAATTAAAACAAAATAAATATTCTTTATTAAA 6 229 1 AAAATATATT 0.46574 -72 ATCTTTTTTAATAAATTTTAATAAAGAATATT 6 245 0 ATAAATTAAT 0.916939 -56 AAATTTATTAAAAAAGATTAATAAAGAATGAG 6 259 1 AAAAAATAAT 0.767165 -42 ATGAGAACAAAAAATATATAAAATA 6 286 1 AAAATTTAAA 0.672091 -15 ATTTTAAATCTTAATTTTAAAATTACTTATTT 7 23 0 TTAATTAAAA 0.781077 -98 TCCGTAGATATTAATTTTAAATCTTAATTTTA 7 36 0 TTAATTAAAT 0.872596 -85 AATTATGAAATTAAAGTTAAATTTTAAAACAA 7 73 1 TTAAATAAAT 0.909431 -48 AATAAACTTTATAATATTAAATTTAATTAAAT 8 14 1 ATAATTAAAT 0.940975 -129 TTAAATTTAATTAAATAAAAATCGTCTATTAT 8 30 1 TTAAAAAAAT 0.851512 -113 TTTTTTTATAATAAAGTCAATAAAAACCGTCC 8 73 0 ATAAATAATA 0.825278 -70 AAACTTATAAATAATTTTAATTTGGGGGAAAG 8 115 1 ATAATTAATT 0.860816 -28 CTATAGCTTGAAAAACAATAAAGACTATATGA 9 51 1 AAAAAATAAA 0.631864 -73 AGGCATTTACATAAATAATAATATTAAGTATA 10 14 1 ATAAAATAAT 0.863325 -65 TAAAAAATATAAAAACTTAAATACAGATTATA 11 34 1 AAAAATAAAT 0.924103 -121 TTTTTTAAATAAAAAATATAATCTGTATTTAA 11 50 0 AAAAATTAAT 0.85217 -105 TTTTATTTAAAAAAAAACAATTCTTTTAAAGA 11 68 1 AAAAAAAATT 0.729548 -87 GAAAACTAACATAAACTAAAAACAAAAACAAT 11 98 1 ATAAATAAAA 0.924103 -57 AAATTATAGCTTAATGTGTATTGAATGATAAA 11 129 0 TTAATTTATT 0.557327 -26 AATGTTAAAATAAAAGAATAAATAAATTATTA 12 25 0 TAAAAATAAA 0.424415 -218 AGAGAGCAAATTAATGTTAAAATAAAAGAATA 12 37 0 TTAATTAAAA 0.781077 -206 AAAAATGCTTAAAATATAAAAACCTTAATAAA 12 68 0 AAAATTAAAA 0.812249 -175 TTAATTGCTAATAAATAAAAATGCTTAAAATA 12 84 0 ATAAAAAAAT 0.930306 -159 TAAATTATCTATAAAAATTAATTGCTAATAAA 12 101 0 ATAAAATAAT 0.863075 -142 TTAAATTTTAATAAACAAAATAAATTATCTAT 12 121 0 ATAAAAAATA 0.729548 -122 TTTGTTTATTAAAATTTAAAATGCTATTGAAA 12 134 1 AAAATTAAAT 0.89253 -109 AATGCTATTGAAAATATAAATTTTAAGCTTTA 12 153 1 AAAATTAATT 0.763133 -90 ***** * **** Masking position 4 Map Score: 63.2936 Number of sites scoring better than the average of aligned sites = 4353 Number in coding regions = 2723 Number in noncoding regions = 1630 Number of orfs with sites within 600 bp upstream = 252 Fraction of orfs with sites within 600 bp upstream = 0.0404754 Motif number 2 CAAAAGATCCTTTAAAGGATCTTTTGTTTTTTTATTTCA 1 43 1 TAAGTTTTTT 0.929555 -111 TGAGGAATAATAGCAAATATTTTAATTTTTTGGTATAAA 3 52 0 TAATTTATTT 0.848064 -111 TAAAGTTAATTTGTAATTGACTTATTTTAAATTAATGCT 3 107 1 TAATTTTTTA 0.949419 -56 CTTGACTTGATCTTAAGTCAAGTTTTTTTTTCTTTAATT 4 14 0 TAATGTTTTT 0.817558 -76 ATAGGTATAATGTCAATTCCCTGATCTGAAATGCTTCCC 5 52 0 TAATTGTTGA 0.446457 -249 ATGTATCTTTTATTAAATACATTGTTTTTGATTAGTGTT 5 133 0 TAATTTTTTT 0.980949 -168 CTGTTTATGGTTTGAAGTATTTTTTTGGTAGATGGTTCG 5 178 0 TAATTTTGGT 0.763235 -123 AATCTAGGGATTCAAATTCTTTTTTTGTTAAATAGCCTA 5 231 0 TAATTTTGTT 0.950557 -70 TGAAATGTTTTCAAAAATGTATGCTTGTTTAATATTA 6 9 0 TAATTGTGTT 0.831273 -292 AGTCTAATAATTTTAAATAGTTTTTAGTATTATTTGTCT 6 104 0 TAATTTTGTA 0.875127 -197 TTTGTCTTACTTTGATTTGTCTTGTATTTAAATTTTACT 6 163 0 TATTTTTTTT 0.768585 -138 AAATCTTAATTTTAAAATTACTTATTTTACTTAATTTTA 7 11 0 TAATTTTTTA 0.949419 -110 ATTTATAAGTTTTAAACTATCTTTTTTTTATAATAAAGT 8 88 0 TAATTTTTTT 0.980949 -55 AGTTTAAAACTTATAAATAATTTTAATTTGGGGGAAAGG 8 109 1 TAATTTATTT 0.848064 -34 TTTGATAGAATAGGAGGTTTTTTGTATTATA 9 3 0 TAGTTTTTTA 0.767565 -121 ACCTCCTGTAAAATTTATTTTCTTAAAAAATATAA 11 7 1 TAATTTTTTA 0.949418 -148 GTTAGTTTTCTTTAAAAGAATTGTTTTTTTTTAAATAAA 11 69 0 TAAGTGTTTT 0.771771 -86 GTGTATTGAATGATAAATTGTTTTTGTTTTTAGTTTATG 11 107 0 TAATTTTTTT 0.980949 -48 CTCTCTTTTGTAATAATTTATTTATTCTTTTATTTTAAC 12 15 1 TAATTTTCTT 0.845205 -228 TTGCTCTCTTTATTAAGGTTTTTATATTTTAAGCATTTT 12 60 1 TAAGTTTTTT 0.929555 -183 TTAATTTTTATAGATAATTTATTTTGTTTATTAAAATTT 12 112 1 TTATTTTTTT 0.75146 -131 AAATATAAATTTTAAGCTTTATTATATTTCATTAGAATA 12 164 1 TAGTTTTTTT 0.900587 -79 GAATAGAATATTGTAAGTCATTTATGTTTGATATTTATA 12 198 1 TAATTTTTTT 0.980949 -45 * ** * ** * *** Masking position 1 Map Score: 31.9014 Number of sites scoring better than the average of aligned sites = 709 Number in coding regions = 459 Number in noncoding regions = 250 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 3 AAATTAAAGAAAAAAAAACTTGACTTAAGA 4 13 1 AAAAAAAACT 0.653036 -77 CATATATAATAATAAAATTTCACACTGGGG 5 25 1 AATAAAATTT 0.609881 -276 CCATCTACCAAAAAAATACTTCAAACCATA 5 182 1 AAAAAATACT 0.783957 -119 CTATTTAACAAAAAAAGAATTTGAATCCCT 5 235 1 AAAAAAGAAT 0.85626 -66 AGGCTTTAAAAATAAAAACT 5 291 1 AATAAAAACT 0.844398 -10 TTGTATAGTAAATAAGGTATAATGGTGTGA 6 45 0 AATAAGGTAT 0.6935 -256 TCTTATAATAAAAAAAGTCTAATAATTTTA 6 128 0 AAAAAAGTCT 0.797539 -173 AATAAATTTTAATAAAGAATATTTATTTTG 6 238 0 AATAAAGAAT 0.944981 -63 AATCTTTTTTAATAAATTTTAATAAAGAAT 6 248 0 AATAAATTTT 0.750587 -53 AAAATTTATTAAAAAAGATTAATAAAGAAT 6 258 1 AAAAAAGATT 0.713481 -43 AAAAAAGATTAATAAAGAATGAGAACAAAA 6 268 1 AATAAAGAAT 0.944981 -33 AATTAAGTAAAATAAGTAATTTTAAAATTA 7 14 1 AATAAGTAAT 0.675776 -107 GTCCATAAGGAATAAATAATAGACGATTTT 8 47 0 AATAAATAAT 0.914376 -96 TTTTTTTTATAATAAAGTCAATAAAAACCG 8 76 0 AATAAAGTCA 0.588968 -67 CTTGAAAAACAATAAAGACTATATGATATA 9 57 1 AATAAAGACT 0.943898 -67 TTTTTAAGAAAATAAATTTTACAGGAGGT 11 10 0 AATAAATTTT 0.750587 -145 TTTTTTTTTAAATAAAAAATATAATCTGTA 11 55 0 AATAAAAAAT 0.84709 -100 TAAAAGAATAAATAAATTATTACAAAAGAG 12 17 0 AATAAATTAT 0.878198 -226 ATTAATTGCTAATAAATAAAAATGCTTAAA 12 87 0 AATAAATAAA 0.574022 -156 TAATAAACAAAATAAATTATCTATAAAAAT 12 115 0 AATAAATTAT 0.878198 -128 ********** Masking position 5 Map Score: 22.186 Number of sites scoring better than the average of aligned sites = 1131 Number in coding regions = 687 Number in noncoding regions = 444 Number of orfs with sites within 600 bp upstream = 105 Fraction of orfs with sites within 600 bp upstream = 0.0168648 Motif number 4 TAATACAATTTATACCAATTAAACTAGAATT 1 11 0 TATACCAATA 0.769661 -143 CTGAAATAAAAAAACAAAAGATCCTTTAAAG 1 52 0 AAAACAAAAA 0.870898 -102 AGTAGTAATTTATACCAAAAAATTAAAATAT 3 44 1 TATACCAAAA 0.710573 -119 AAATAAGTCAATTACAAATTAACTTTATTGA 3 103 0 ATTACAAATA 0.820033 -60 TTAAATTAAAGAAAAAAAAACTTGACTTA 4 9 1 AAGAAAAAAA 0.63581 -81 CAAGTCAAGTAATACAATTTAACATTGGCAT 4 44 1 AATACAATTA 0.709548 -46 CCTTATTTACTATACAAATTAAAGTAAAATT 6 58 1 TATACAAATA 0.941818 -243 CTTGCAACAATAGACAAATAATACTAAAAAC 6 93 1 TAGACAAATA 0.899896 -208 ATTTAAATACAAGACAAATCAAAGTAAGACA 6 169 1 AAGACAAATA 0.949905 -132 AAATCAAAGTAAGACAAATCAAAGTACTGGA 6 184 1 AAGACAAATA 0.949905 -117 ATTTAAAATTAAAACAAAATAAATATTCTTT 6 224 1 AAAACAAAAA 0.870898 -77 TATAATACAAAAAACCTCCTATTC 9 4 1 AATACAAAAA 0.961668 -120 TGGCTGTATTAATACAAATCAAGATTATACT 10 40 0 AATACAAATA 0.971546 -39 TAAAAACTTAAATACAGATTATATTTTTTAT 11 43 1 AATACAGATA 0.792954 -112 TTTTTTTTTAAATAAAAAATATAATCTGTAT 11 54 0 AATAAAAAAA 0.758668 -101 TTTATCATTCAATACACATTAAGCTATAATT 11 129 1 AATACACATA 0.792955 -26 TAAATAAATTATTACAAAAGAGAGTATT 12 8 0 ATTACAAAAA 0.770006 -235 ATAAATTATCTATAAAAATTAATTGCTAATA 12 103 0 TATAAAAATA 0.66979 -140 TAAATTTTAATAAACAAAATAAATTATCTAT 12 121 0 TAAACAAAAA 0.761793 -122 ********* * Masking position 4 Map Score: 21.2934 Number of sites scoring better than the average of aligned sites = 571 Number in coding regions = 347 Number in noncoding regions = 224 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 5 CGGCAAAAATTTAATAATTTTAGTATAATTTA 1 85 1 TTAAAATTTA 0.824767 -69 TAACACATCATTATAAATTATACTAAAATTAT 1 98 0 TTATAATATA 0.893623 -56 TAATGATGTGTTATAAAGCATAATGCAGGCTT 1 117 1 TTATAACATA 0.795292 -37 AAAGTCAGAAATTTAAATTTTATCATGGAGGA 2 22 1 ATTTAATTTA 0.70898 -29 AGTCAATTACAAATTAACTTTATTGATTAAGT 3 97 0 AAATAATTTA 0.790138 -66 AATCCCTAGATTTTAAATTATATCCCAATATT 5 258 1 TTTTAATATA 0.70898 -43 TAATATTAAACAAGCATACATTTTTGAA 6 7 1 TAAAAACATA 0.388275 -294 TTTGTCTTGTATTTAAATTTTACTTTAATTCT 6 155 0 ATTTAATTTA 0.70898 -146 TAATCTTTTTTAATAAATTTTAATAAAGAATA 6 247 0 TAATAATTTA 0.852655 -54 CTTTCCGTAGATATTAATTTTAAATCTTAATT 7 39 0 ATATAATTTA 0.893623 -82 TCAAAGTTTGTTTTAAAATTTAACTTTAATTT 7 80 0 TTTTAATTTA 0.789232 -41 AAATTTAATATTATAAAGTTTATTATA 8 6 0 TTATAATTTA 0.92812 -137 GATTTTTATTTAATTAAATTTAATATTATAAA 8 21 0 TAATAATTTA 0.852655 -122 TTAAAACTTATAAATAATTTTAATTTGGGGGA 8 112 1 TAAAAATTTA 0.678157 -31 CTATCAAAAATTATCAACTATAGCTTGAAAAA 9 34 1 TTATAATATA 0.893623 -90 ATAAATAATAATATTAAGTATAATCTTGATTT 10 24 1 ATATAATATA 0.845328 -55 TTTTTTAAGAAAATAAATTTTACAGGAGGT 11 9 0 AAATAATTTA 0.790138 -146 ATTTATTTTCTTAAAAAATATAAAAACTTAAA 11 23 1 TTAAAATATA 0.753828 -132 TTTTTTTTAAATAAAAAATATAATCTGTATTT 11 52 0 ATAAAATATA 0.665805 -103 TGCTTAAAATATAAAAACCTTAATAAAGAGAG 12 63 0 ATAAAACTTA 0.586127 -180 TTCAATAGCATTTTAAATTTTAATAAACAAAA 12 133 0 TTTTAATTTA 0.789232 -110 TAATGAAATATAATAAAGCTTAAAATTTATAT 12 166 0 TAATAACTTA 0.727992 -77 CCTAATATAAATATCAAACATAAATGACTTAC 12 210 0 ATATAACATA 0.716518 -33 **** ** **** Masking position 11 Map Score: 31.3747 Number of sites scoring better than the average of aligned sites = 1186 Number in coding regions = 697 Number in noncoding regions = 489 Number of orfs with sites within 600 bp upstream = 138 Fraction of orfs with sites within 600 bp upstream = 0.0221651 Motif number 6 TTTATACCAATTAAACTAGAATT 1 1 0 TTAATAGATT 0.960726 -153 AATTTAATAATTTTAGTATAATTTATAATGATG 1 92 1 TTTATATATT 0.836037 -62 ACTTTATTGATTAAGTTATAATTGAGGAATAAT 3 80 0 TTAGTATATT 0.736254 -83 TTGTTTAAGTATATAATAGCATTAATTTAAAAT 3 130 0 ATAATAGATT 0.623992 -33 CAGTGTGAAATTTTATTATTATATATGTTGTGA 5 19 0 TTTATATATA 0.493641 -282 ATTAGTGTTTTTAGAATAGCTTTGTTAGATATG 5 109 0 TTAATAGTTT 0.920616 -192 ATACATTGTTTTTGATTAGTGTTTTTAGAATAG 5 123 0 TTTATAGGTT 0.662138 -178 TAATATTAAACAAGCATACATTTTTGAA 6 6 1 TTAAAAGATA 0.24089 -295 ACTATACAAATTAAAGTAAAATTTTGGCTTGCA 6 66 1 TTAATAAATT 0.863787 -235 GTCTAATAATTTTAAATAGTTTTTAGTATTATT 6 109 0 TTTATAGTTT 0.8643 -192 ATTATAAGAATTAAAGTAAAATTTAAATACAAG 6 149 1 TTAATAAATT 0.863787 -152 TATTAATCTTTTTTAATAAATTTTAATAAAGAA 6 249 0 TTTATAATTT 0.622801 -52 ACGATTTTTATTTAATTAAATTTAATATTATAA 8 22 0 TTTATAATTT 0.622801 -121 TTTATAAGTTTTAAACTATCTTTTTTTTATAAT 8 93 0 TTAATATTTT 0.814863 -50 AGATTATACTTAATATTATTATTTATGTAAATG 10 17 0 TAAATATATT 0.386387 -62 TGTTTTTAGTTTATGTTAGTTTTCTTTAAAAGA 11 89 0 TTAGTAGTTT 0.777132 -66 TCAATACACATTAAGCTATAATTTAGGC 11 137 1 TTAGTATATT 0.736254 -18 AAATTTATATTTTCAATAGCATTTTAAATTTTA 12 143 0 TTTATAGATT 0.930723 -100 TTATATTTCATTAGAATAGAATATTGTAAGTCA 12 185 1 TTAATAGATA 0.82387 -58 TGTTTGATATTTATATTAGGATTAAAGCTTG 12 222 1 TTAATAGATT 0.960726 -21 *** * *** *** Masking position 12 Map Score: 17.8883 Number of sites scoring better than the average of aligned sites = 583 Number in coding regions = 341 Number in noncoding regions = 242 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007 Motif number 7 AAAACTTAACATATAAATCTAGTAGTAATT 3 24 1 ATATAAATCT 0.9296 -139 TAAAAGATACATAAAAATCGAACCATCTAC 5 160 1 ATAAAAATCG 0.954117 -141 ATTTAATTAAATAAAAATCGTCTATTATTT 8 34 1 ATAAAAATCG 0.954117 -109 AATAAAGTCAATAAAAACCGTCCATAAGGA 8 66 0 ATAAAAACCG 0.953233 -77 CTTAAAAAATATAAAAACTTAAATACAGAT 11 32 1 ATAAAAACTT 0.850135 -123 TGCTTAAAATATAAAAACCTTAATAAAGAG 12 65 0 ATAAAAACCT 0.954117 -178 GCTATTGAAAATATAAATTTTAAGCTTTAT 12 156 1 ATATAAATTT 0.782883 -87 TTTAATCCTAATATAAATATCAAACATAAA 12 218 0 ATATAAATAT 0.669787 -25 ********** Masking position 5 Map Score: 5.08159 Number of sites scoring better than the average of aligned sites = 137 Number in coding regions = 82 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 8 GTTAATTTGTAATTGACTTATTTTAAATTA 3 111 1 AATTGACTTA 0.973978 -52 AGAAAAAAAAACTTGACTTAAGATCAAGTC 4 20 1 ACTTGACTTA 0.96878 -70 AAATTGTATTACTTGACTTGATCTTAAGTC 4 34 0 ACTTGACTTG 0.919003 -56 CTTAATTTTAAAATTACTTATTTTACTTAA 7 16 0 AAATTACTTA 0.756292 -105 TATATGATATAATTGACTAATACGTAAGTT 9 76 1 AATTGACTAA 0.902286 -48 TATCAAACATAAATGACTTACAATATTCTA 12 201 0 AAATGACTTA 0.952518 -42 ********** Masking position 6 Map Score: 2.75049 Number of sites scoring better than the average of aligned sites = 27 Number in coding regions = 17 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 9 AATTTTTGCCGATCTGAAATAAAAAAACAA 1 66 0 GATCTGAAAT 0.955072 -88 GATTTGCCAAAGTCAGAAATTTAAATTTTA 2 14 1 AGTCAGAAAT 0.839855 -37 AGCTCATGCCAATGTTAAATTGTATTACTT 4 50 0 AATGTTAAAT 0.676525 -40 ATGCTTCCCCAGTGTGAAATTTTATTATTA 5 31 0 AGTGTGAAAT 0.955072 -270 TCAATTCCCTGATCTGAAATGCTTCCCCAG 5 49 0 GATCTGAAAT 0.955072 -252 AAGGTATAATGGTGTGAAATGTTTTCAAAA 6 32 0 GGTGTGAAAT 0.970953 -269 ********** Masking position 7 Map Score: 1.19541 Number of sites scoring better than the average of aligned sites = 27 Number in coding regions = 15 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467 Motif number 10 AGCAAACTCCTCAATAAGCCT 1 143 0 GCAAACTCCT 0.987013 -11 GCAAACTCCTTTGTTTAAGT 3 153 0 GCAAACTCCT 0.987013 -10 TATAATACAAAAAACCTCCTATTCTATCAA 9 11 1 AAAACCTCCT 0.915598 -113 CTAATTCCAACCTCCTTATGGCTGTA 10 63 0 CCAACCTCCT 0.984587 -16 ********** Masking position 4 Map Score: 0.669841 Number of sites scoring better than the average of aligned sites = 6 Number in coding regions = 0 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467 Motif number 11 GTAGTAATTTATACCAAAAAATTAAAATAT 3 45 1 ATACCAAAAA 0.725527 -118 TCAAGTAATACAATTTAACATTGGCATGAG 4 48 1 CAATTTAACA 0.477716 -42 AATTGACAGCATATCTAACAAAGCTATTCT 5 100 1 ATATCTAACA 0.821465 -201 ATCGAACCATCTACCAAAAAAATACTTCAA 5 176 1 CTACCAAAAA 0.702418 -125 GCTCTGTAGGCTATTTAACAAAAAAAGAAT 5 225 1 CTATTTAACA 0.865917 -76 TAATATTAAACAAGCATACATT 6 3 1 ATATTAAACA 0.878524 -298 TAGACAAATAATACTAAAAACTATTTAAAA 6 103 1 ATACTAAAAA 0.806008 -198 ATACTAAAAACTATTTAAAATTATTAGACT 6 113 1 CTATTTAAAA 0.916061 -188 TTTAATTCTTATAATAAAAAAAGTCTAATA 6 134 0 ATAATAAAAA 0.511182 -167 GGAGGCATACATATTTAAAATTAAAACAAA 6 212 1 ATATTTAAAA 0.924366 -89 TTATTAAAATTTATTAAAAAAGATTAATAA 6 253 1 TTATTAAAAA 0.713518 -48 AGAACAAAAAATATATAAAATA 6 289 1 ATATATAAAA 0.54605 -12 TTTAAAATTAAGATTTAAAATTAATATCTA 7 34 1 AGATTTAAAA 0.592651 -87 ATTAAATTTAATATTATAAAGTTTATTATA 8 11 0 ATATTATAAA 0.466499 -132 ACCTCCTATTCTATCAAAAATTATCAACTA 9 24 1 CTATCAAAAA 0.874106 -100 ATTATATTTTTTATTTAAAAAAAAACAATT 11 60 1 TTATTTAAAA 0.713931 -95 TTGTTTATTAAAATTTAAAATGCTATTGAA 12 135 1 AAATTTAAAA 0.63383 -108 ATTTAAAATGCTATTGAAAATATAAATTTT 12 147 1 CTATTGAAAA 0.694746 -96 CCTAATATAAATATCAAACATAAATGACTT 12 212 0 ATATCAAACA 0.821465 -31 ********** Masking position 3 Map Score: 10.1909 Number of sites scoring better than the average of aligned sites = 1261 Number in coding regions = 833 Number in noncoding regions = 428 Number of orfs with sites within 600 bp upstream = 89 Fraction of orfs with sites within 600 bp upstream = 0.0142949 Motif number 12 ********** No masking Map Score: 6.10599e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 13 ********** No masking Map Score: 6.10599e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 14 ********** No masking Map Score: 6.10599e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0