AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00230_mgen_reg_100.orf -o00230_mgen_100.ace -a/home/amcguire/genomes/ORF_mgen.txt -z/home/amcguire/genomes/mgen.fna -g0.32 -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 = 0.32 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 MG001 300 DNA polymerase III, subunit beta (dnaN) #2 MG018 188 ATP-dependent RNA helicase, putative #3 MG019 41 heat shock protein (dnaJ) #4 MG022 29 DNA-directed RNA polymerase, subunit delta (rpoE) #5 MG031 264 DNA polymerase III, subunit alpha (polC-1) #6 MG058 85 ribose-phosphate pyrophosphokinase (prs) #7 MG142 258 translation initiation factor 2 (infB) #8 MG144 24 conserved hypothetical protein #9 MG148 38 conserved hypothetical protein #10 MG149 75 lipoprotein, putative #11 MG149.1 90 conserved hypothetical protein #12 MG150 89 ribosomal protein S10 (rpS10) #13 MG211 189 conserved hypothetical protein #14 MG227 300 thymidylate synthase (thyA) #15 MG261 300 DNA polymerase III, subunit alpha (polC-2) #16 MG277_MG278 42 MG277: conserved hypothetical protein, MG278: guanosine-3',5'-bis(diphosphate) 3'- pyrophosphohydrolase (spoT) #17 MG341 89 DNA-directed RNA polymerase, subunit beta (rpoB) #18 MG342 78 conserved hypothetical protein #19 MG345 43 isoleucyl-tRNA synthetase (ileS) #20 MG422 37 conserved hypothetical protein #21 MG424 188 ribosomal protein S15 (rps15) #22 MG459 172 conserved hypothetical protein Motif number 1 TCTATAATTTTGTTCATAAAAAGCTTATAATTAAGCAT 1 123 0 TTTAAAAAAT 0.771202 -178 TATCTATTATTTATTATAAGAACTAAAATGTCTATAAT 1 153 0 TATAAGAAAA 0.766415 -148 AAATAATAGATATTAAAGAAAATAAAAAAATAGAAATA 1 179 1 TTTAAAAAAA 0.977148 -122 AGAAATTAATACTTAATCAAAAATGAAAATATTAATTA 1 240 1 ATTAAAAAAA 0.938449 -61 ATGAAAATATTAATTAATAAAAGTGAATTGAATAAAAT 1 262 1 TATAAAAAAT 0.584473 -39 TTGTAGTGCTTGTTCATAAAAAAGTAAACGGTTGAAGT 2 32 0 TTTAAAAAAA 0.977152 -157 TCAAATAGATTATTTAAGAAGATTTGAAAACATTCCCA 2 90 1 TTTAAAGAAA 0.780813 -99 AGCAAGAATTATAATTAACACTCTAAGGATGCAAGT 3 9 1 TATAAACAAA 0.899813 -33 AAATCAATAAAATTCTAATACTACTTTT 4 12 0 AATAAAAAAA 0.864177 -18 GATTAAAGGTTAATTAGATACAGAATAAACAACTATTT 5 19 1 TATATACAAA 0.653304 -246 TAAAAGTGGTTATATACCAAAATTTAAACCTTCTTTTG 5 121 0 TTAAAAAAAA 0.899726 -144 CACTTTTTCGTAAAAAAAAAAAAAAAAAAAGCAGTTTT 5 172 0 TAAAAAAAAA 0.789221 -93 AAGCGTTTATTAAAAAAATCAAAATAAAAGATCG 5 241 0 TATAAAAAAA 0.946929 -24 CGTTATTTTTAGTTTATCTAAAAGCAAAACACTGGTTG 6 20 1 ATTATAAAAA 0.761834 -66 AACAAGACTTTGTTTATTAACAAGAAAACATTTTGTTA 7 21 1 TTTAAACAAA 0.955593 -238 TTGAAATTGATCTTAATCAAAATCTCAAGGGCAGGGGT 7 98 1 TTTAAAAAAA 0.977152 -161 GTTTAAAGCTAGATAAAAAACACCTCAAAGCTGTAGTT 7 155 1 AATAAACAAA 0.762019 -104 TCAAAGCTGTAGTTGAAAAACACCTTAAGGTTAGTTGT 7 179 1 ATTAAACAAA 0.884701 -80 TTTGTTAGCTTATTTAGAAAAATTCAAAATAAGCAAAT 10 18 1 TTTAAAAAAA 0.977152 -58 TTCTCAATTAAATAAAAAAACAGTGTAAGTGTACACTG 11 54 0 ATAAAACAAA 0.61683 -37 GATTTTGGTGTATCAACTAAAAACTAAAGCGTTATGAT 12 23 0 TTCAAAAAAA 0.7664 -67 ACTGTTAAAATGTTTATTAAAAAAACAAAATAAAAAGC 14 234 1 TTTAAAAAAA 0.977152 -67 ACAATCTAATTCTTTATTAGAATTTAAACGATTTCATC 15 21 1 TTTAAGAAAA 0.887103 -280 CACATATGGCAAAAGATAAAAAAAATAAGGTTGATGGA 15 72 1 AAAAAAAAAA 0.571706 -229 TACTTAATATTTATATAAAATTTAAGTTATTAAAA 16 8 1 TTTATAAAAA 0.899725 -35 AAATAAAAAGTATTTAAAAACAATTTAATAGAAGCGTA 18 32 0 TTTAAACAAA 0.955602 -47 TTTTAAATACTTTTTATTTAAAATTTAAGTGTTAATTT 18 51 1 TTTATAAAAA 0.892841 -28 CGAGAGAATTTATTAATAAAAATAAAAACTATATTTAT 21 67 1 TTTAAAAAAA 0.97714 -122 AACACGTTGAATTATAACAAAATTAGAAAACGGCTCAT 21 152 0 ATAAAAAAAA 0.761834 -37 AAGCAAAATTTATTAAAGTGAACCAAAATAAAATTGAA 22 33 0 TTTATGAAAA 0.622584 -140 CAAATATCCTTATTTAGACAAAGCAAAATTTATTAAAG 22 53 0 TTTACAAAAA 0.7664 -120 * ** * **** ** Masking position 12 Map Score: 40.0955 Number of sites scoring better than the average of aligned sites = 411 Number in coding regions = 355 Number in noncoding regions = 56 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 2 AGCAGTAATAATTACATATGTACATA 1 4 1 AAATAATTAA 0.805279 -297 TATGTAAAATATCATTAATTTCTGTTATATATA 1 42 1 AATTAATTTT 0.745845 -259 GCTTAATTATAGTAATAATTAATACTCTCTAAA 1 86 0 AAATAATTAT 0.483742 -215 TTAAGCATTTATGCTTAATTATAAGCTTTTTAT 1 113 1 ACTTAATTAA 0.774033 -188 TTTAATATCTATTATTTATTATAAGAACTAAAA 1 163 0 AATTTATTAA 0.91921 -138 TTTTTGATTAAGTATTAATTTCTGGGTTATCAA 1 230 0 AATTAATTTT 0.717134 -71 CAAAAATGAAAATATTAATTAATAAAAGTGAAT 1 257 1 AATTAATTAT 0.869756 -44 AGGTTTTATGAAGAATTATTTCAAATAGATTAT 2 70 1 AAATTATTTA 0.576326 -119 ATTATTTCAAATAGATTATTTAAGAAGATTTGA 2 84 1 AGATTATTTA 0.490289 -105 GCATCCTTAGAGTGTTAATTATAATTCTTGCT 3 10 0 AGTTAATTAA 0.906375 -32 TGAAAGATTAAAGGTTAATTAGATACAGAATAA 5 14 1 AGTTAATTAA 0.906384 -251 GGCTAAAACTAAAAATAATTATTGATAAATTTC 5 209 1 AAATAATTAT 0.55035 -56 AAGCGTTTATTAAAAAAATCAAAA 5 251 0 AGTTTATTAA 0.890217 -14 TAGGATTAATTTTACTTCAAGCTG 8 11 0 AATTAATTTA 0.807987 -14 TATTAGTTAACTAATTAATTAGTTGCAAAAAGT 9 16 0 CATTAATTAT 0.627723 -23 TGACTGTTAAAATGTTTATTAAAAAAACAAAAT 14 232 1 AGTTTATTAA 0.890207 -69 GAACAATCTAATTCTTTATTAGAATTTAAACGA 15 19 1 ACTTTATTAA 0.74152 -282 AAATATCGAGAGAATTTATTAATAAAAATAAAA 21 61 1 AATTTATTAT 0.875724 -128 AGTAAGTAGGAGAATTTATTACTTCTAACCTTG 21 116 1 AATTTATTAT 0.875724 -73 TATAATTCAACGTGTTTATTAATTA 21 174 1 CGTTTATTAT 0.499456 -15 TAGACAAAGCAAAATTTATTAAAGTGAACCAAA 22 44 0 AATTTATTAA 0.919711 -129 TGTTACAAATAATTATAATATCGCTCA 22 156 0 AAATAATTAA 0.829583 -17 * ******** * Masking position 6 Map Score: 17.8269 Number of sites scoring better than the average of aligned sites = 159 Number in coding regions = 127 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 3 TTATGCTTAATTATAAGCTTTTTATGAACAAAAT 1 121 1 TTTAACTTTA 0.461888 -180 TATTTCTATTTTTTTATTTTCTTTAATATCTATT 1 183 0 TTTTATTTTT 0.918363 -118 CTTTTATTAATTAATATTTTCATTTTTGATTAAG 1 251 0 TTATATTTTT 0.785519 -50 CGCAATTTGATTCTTATCTTTAATGGGAATGTTT 2 117 0 TTTTACTTAT 0.904615 -72 TATACCAAAATTTAAACCTTCTTTTGGTTAGTTC 5 113 0 TTAAACTTTT 0.70252 -152 TTTGAGGTGTTTTTTATCTAGCTTTAAACCAAAA 7 150 0 TTTTACTATT 0.923118 -109 GGTTTAATTTGTTAGCTTATTTAGAAAAATTC 10 9 1 TTTTACTTTT 0.966708 -67 AAAAAGATAGTTATTAACTTAATTTAGAATTAAC 11 14 1 TTTTACTTTT 0.966773 -77 CGTAGTCAATTTATTAACTAACTAGTGAACTAGA 12 61 1 TTTTACTATA 0.582895 -29 TAAATCATCATTTTTAACTTCAATCTTAGGCA 13 9 0 TTTTACTTAT 0.904611 -181 AGTGATATCCTTTTAAACTTTTTTAAAGCTAGCT 13 44 0 TTTAACTTTT 0.878813 -146 GTGGGTGTTTATACCTAACTTTTCACCTGAC 14 8 1 TTATACTATT 0.796291 -293 GATGCCATTATTGTTACCTTGTTTGCGATACCCT 14 56 0 TTTTACTTTT 0.966813 -245 ATAAAACCGCTTTTTATTTTGTTTTTTTAATAAA 14 246 0 TTTTATTTTT 0.918363 -55 TAACTATTTTTAATAACTTAAATTTTATATAAA 16 20 0 TTATACTTAT 0.754881 -23 TTTTAAATACTTTTTATTTAAAATTTAAGTGTTA 18 51 1 TTTTATTAAT 0.60145 -28 ATTTTATTAATATTTATCTAACTTACATCTG 19 8 0 TATTACTATT 0.436438 -36 GTACCTTTCAAATTTTAATTGCTAATCTTT 20 18 0 TTAAATTTTT 0.476959 -20 TTAAATGGCTTTGTTAATTTGTTTAGATGTATAG 21 14 1 TTTTATTTTT 0.918362 -175 ATAAATATAGTTTTTATTTTTATTAATAAATTCT 21 71 0 TTTTATTTTT 0.918363 -118 TCCTACTTACTTATTACTTATAATAAATATAGTT 21 93 0 TTTTATTAAT 0.60149 -96 ** *** *** ** Masking position 9 Map Score: 23.5982 Number of sites scoring better than the average of aligned sites = 429 Number in coding regions = 361 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 4 ATACTATTATATATAACAGAAATTAATGATATTT 1 48 0 ATATAAAATT 0.524743 -253 GATATTAAAGAAAATAAAAAAATAGAAATAAATA 1 187 1 AAAAAAAATA 0.936041 -114 ATAACCCTTGATAACCCAGAAATTAATACTTAAT 1 223 1 ATAACAAATT 0.5568 -78 AATACTTAATCAAAAATGAAAATATTAATTAATA 1 247 1 CAAAAAAATA 0.740663 -54 CCCATTAAAGATAAGAATCAAATTGCGCTTTTTA 2 124 1 ATAAAAAATT 0.806886 -65 AAATCAATAAAATTCTAATACTAC 4 16 0 AAATAAAATT 0.760964 -14 GTGTGAATTTAAAAACTTCAAATAGTTGTTTATT 5 42 0 AAAACAAATA 0.814829 -223 TTTCGTAAAAAAAAAAAAAAAAAAAGCAGTTTTT 5 171 0 AAAAAAAAAA 0.736737 -94 AAATCAAAATAAAAGATCGAAATTTATCAATAAT 5 226 0 AAAAAAAATT 0.923354 -39 AGCGTTTATTAAAAAAATCAAAATAAAAGATCGA 5 240 0 AAAAAAAAAT 0.697301 -25 TTGCTTTTAGATAAACTAAAAATAACGTGCTTTT 6 13 0 ATAACAAATA 0.604149 -73 AAAATATCTGCAAAAAACTAAATATTTCAGAGGG 6 58 1 CAAAAAAATA 0.740663 -28 CTTTAAACCAAAAACACTCAAATAATAACCCCTG 7 129 0 AAAAAAAATA 0.936041 -130 AGAAAAATTCAAAATAAGCAAATTATAATTAGGT 10 33 1 AAAAAAAATT 0.923354 -43 AATGTTTATTAAAAAAACAAAATAAAAAGCGGTT 14 242 1 AAAAAAAATA 0.936041 -59 CACATATGGCAAAAGATAAAAAAAATAAGGTTGA 15 72 1 AAAAAAAAAA 0.736737 -229 ATTAAGCGTGAAATTAAAGAAATAGAACGCAAAA 15 254 1 AAATAAAATA 0.794547 -47 AAAGTATTTAAAAACAATTTAATAGAAGCGTATA 18 30 0 AAAAATAATA 0.498204 -49 AGTTAGATAAATATTAATAAAATTACTCTGATTT 19 19 1 ATATAAAATT 0.524743 -25 TTTGTAATCCAAAAAAAGTAAATTCAGGCAACAG 22 102 0 AAAAAAAATT 0.923353 -71 **** * ***** Masking position 11 Map Score: 21.4857 Number of sites scoring better than the average of aligned sites = 202 Number in coding regions = 176 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 5 TATATATAATAGTATCTATTTTAGAGAGTATTAA 1 67 1 AACTTTTTAG 0.933769 -234 ATCTTCTTAAATAATCTATTTGAAATAATTCTTC 2 79 0 AACTTTTGAA 0.896538 -110 TGTAATCATCAAAAACAGTTTTAAAAAGCGCAAT 2 145 0 AACATTTTAA 0.968521 -44 ATACAGAATAAACAACTATTTGAAGTTTTTAAAT 5 36 1 AACTTTTGAA 0.896534 -229 GTTAGTTCTTACTAACAGTTTTAAATGTTACACA 5 87 0 AACATTTTAA 0.968522 -178 ATTTTGGTATATAACCACTTTTAGTCTAAAATAG 5 136 1 AACATTTTAG 0.958396 -129 AAAAAAAAAAAAAAGCAGTTTTTGCTATTTTAGA 5 160 0 AACATTTTTG 0.663423 -105 AAATTTATCAATAATTATTTTTAGTTTTAGCCAC 5 207 0 AATATTTTAG 0.549068 -58 CAAGACGTAAAAGTTCTCTTTTAACAAAATGTTT 7 46 0 ATCTTTTTAA 0.617042 -213 GATTTTGATTAAGATCAATTTCAAGTTGGTTGTC 7 88 0 AACATTTCAA 0.90672 -171 TAAGTTAATAACTATCTTTTTTAG 11 1 0 AACTTTTTAG 0.933769 -90 CTAGCTCTAAATCATCATTTTTAACTTCAATCTT 13 16 0 AACATTTTAA 0.968519 -174 TGATATCCTTTTAAACTTTTTTAAAGCTAGCTCT 13 42 0 TACTTTTTAA 0.609356 -148 TAGTAGTAGTAGCAACACGTTTAATCCCAATTCT 14 109 1 AACAGTTTAA 0.923255 -192 TCTTTTTAATATCATCAAGTTCAACTTCATTTAA 15 164 0 AACAGTTCAA 0.791594 -137 TAATTAATAAACACGTTGAATTATAACAAA 21 169 0 AACAGTTGAA 0.846301 -20 * * ** ****** Masking position 10 Map Score: 12.8389 Number of sites scoring better than the average of aligned sites = 283 Number in coding regions = 260 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 6 AACCTTTGTAGTGCTTGTTCATAAAAAAGT 2 45 0 GTGCTTGTTC 0.829307 -144 GAATCAAATTGCGCTTTTTAAAACTGTTTT 2 138 1 GCGCTTTTTA 0.969657 -51 ATAGCAAAAACTGCTTTTTTTTTTTTTTTT 5 166 1 CTGCTTTTTT 0.805638 -99 TTAGTTTTAGCCACTTTTTCGTAAAAAAAA 5 191 0 CCACTTTTTC 0.695795 -74 TAAAAATAACGTGCTTTTTA 6 1 0 GTGCTTTTTA 0.959698 -85 CAGCTTTGAGGTGTTTTTTATCTAGCTTTA 7 158 0 GTGTTTTTTA 0.785802 -101 TAACCTTAAGGTGTTTTTCAACTACAGCTT 7 182 0 GTGTTTTTCA 0.69676 -77 GAAACTTCCTGCGCTTTTTCTGTGCTATCT 13 149 0 GCGCTTTTTC 0.971927 -41 ACCACCTATCCTGCTTTACCAAACTCCATC 14 191 1 CTGCTTTACC 0.632546 -110 TTGTATAAAACCGCTTTTTATTTTGTTTTT 14 254 0 CCGCTTTTTA 0.964021 -47 ATGTTTTGATCCGCTTTTCACCCCACAA 17 72 1 CCGCTTTTCA 0.943762 -18 ********** Masking position 5 Map Score: 5.18653 Number of sites scoring better than the average of aligned sites = 133 Number in coding regions = 122 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 7 CTCAAAAAACTAATACATCAAACTT 2 2 1 TCAAAAACTA 0.800928 -187 AAATAATTCTTCATAAAACCTTTGTAGTGCTTGT 2 57 0 TCAAAAACTG 0.962972 -132 TTTTTGATGATTACAAAACCATTGATTTAGCAGA 2 164 1 TTAAAAACTG 0.973352 -25 AATTCACACTTTGAAAAACTTGTGTAACATTTAA 5 67 1 TTGAAAACTG 0.94014 -198 TTAAAGCTAGATAAAAAACACCTCAAAGCTGTAG 7 157 1 ATAAAAACTC 0.759558 -102 AAAGCTGTAGTTGAAAAACACCTTAAGGTTAGTT 7 181 1 TTGAAAACTT 0.708429 -78 ACTAACAGCGTTATAAAACGCATGCTAATGGACT 17 29 0 TTAAAAACTG 0.973352 -61 TATAACAAAATTAGAAAACGGCTCATTGCCAAGG 21 144 0 TTAAAAACTC 0.957357 -45 ATATTTGAAGTCAAAAAACTGTTGCCTGAATTTA 22 84 1 TCAAAAACTG 0.962972 -89 TTTTTTTGGATTACAAAACAACACTGTTATTTAA 22 119 1 TTAAAAACAC 0.759558 -54 *** ***** ** Masking position 7 Map Score: 4.60994 Number of sites scoring better than the average of aligned sites = 53 Number in coding regions = 46 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 8 ATAAATAATAGATATTAAAGAAAATAAAAA 1 177 1 GATATTAAAG 0.938024 -124 CAATTCTTCTGATAATAAAGTCACTCAAGG 14 136 1 GATAATAAAG 0.70466 -165 TGAACTTGATGATATTAAAAAGATAACAGA 15 175 1 GATATTAAAA 0.948318 -126 AATTAAGCGTGAAATTAAAGAAATAGAACG 15 253 1 GAAATTAAAG 0.70466 -48 TAAAATTTAAGTTATTAAAAATAGTTA 16 26 1 GTTATTAAAA 0.852907 -17 CGATATTTTCGATATTTAAATCTATACATC 21 39 0 GATATTTAAA 0.905885 -150 TCTAAATAAGGATATTTGAAGTCAAAAAAC 22 73 1 GATATTTGAA 0.718829 -100 AAACAACACTGTTATTTAAAGATGAGCGAT 22 134 1 GTTATTTAAA 0.752565 -39 AAAGATGAGCGATATTATAATTATTTGTAA 22 151 1 GATATTATAA 0.766807 -22 ********** Masking position 6 Map Score: 2.31914 Number of sites scoring better than the average of aligned sites = 62 Number in coding regions = 52 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 9 GGTGTTTTTTATCTAGCTTTAAACCAAAAA 7 149 0 ATCTAGCTTT 0.851018 -110 TTAAGTTAATAACTATCTTTTTTAG 11 6 0 AACTATCTTT 0.950232 -85 CTAACTAGTGAACTAGATTTTG 12 78 1 AACTAGATTT 0.863772 -12 GATGATTTAGAGCTAGCTTTAAAAAAGTTT 13 34 1 AGCTAGCTTT 0.957797 -156 GCTTTTTCTGTGCTATCTTTTGTTTTTCTC 13 137 0 TGCTATCTTT 0.805801 -53 TAACTATTTTTAATAACTTAA 16 32 0 AACTATTTTT 0.866108 -11 AGAAGCGTATAGCTATTTTTTTCAATGTTG 18 11 0 AGCTATTTTT 0.886663 -68 TAAAAATAAAAACTATATTTATTATAAGTA 21 83 1 AACTATATTT 0.86149 -106 ********** Masking position 5 Map Score: 3.05849 Number of sites scoring better than the average of aligned sites = 60 Number in coding regions = 58 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 10 AGTATTAGAATTTTATTGATTT 4 18 1 TTTTATTGAT 0.335275 -12 AATTTAAACCTTCTTTTGGTTAGTTCTTACT 5 108 0 TTCTTTTGGT 0.82419 -157 TATCAATAATTATTTTTAGTTTTAGCCACTT 5 205 0 TATTTTTAGT 0.752979 -60 AAAAGCACGTTATTTTTAGTTTATCTAAAAG 6 13 1 TATTTTTAGT 0.752979 -73 ACCAGTGTTTTGCTTTTAGATAAACTAAAAA 6 25 0 TGCTTTTAGT 0.830238 -61 AACAAAGTCTTGTTATTAGTTGCA 7 4 0 TGTTATTAGT 0.819181 -255 ATTATTTGAGTGTTTTTGGTTTAAAGCTAGA 7 137 1 TGTTTTTGGT 0.970399 -122 ATAACGCTTTAGTTTTTAGTTGATACACCAA 12 26 1 AGTTTTTAGT 0.603738 -64 TAGGTGGTTGTTTTTTTGGCTGGGGAGCCAC 14 168 0 TTTTTTTGGT 0.936863 -133 TTTGCATTCTTGTTTGTGGTTCAAAAGTATG 15 224 0 TGTTTGTGGT 0.904902 -77 TTTATAACGCTGTTAGTGGCTTTTTAATGTT 17 46 1 TGTTAGTGGT 0.735786 -44 TCTATTAAATTGTTTTTAAATACTTTTTATT 18 38 1 TGTTTTTAAT 0.642594 -41 TACTTCAATTTTATTTTGGTTCACTTTAATA 22 30 1 TTATTTTGGT 0.632179 -143 CTGAATTTACTTTTTTTGGATTACAAAACAA 22 109 1 TTTTTTTGGT 0.936863 -64 ********* * Masking position 7 Map Score: 7.76857 Number of sites scoring better than the average of aligned sites = 336 Number in coding regions = 294 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 11 ********** No masking Map Score: 1.06114e-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 12 ********** No masking Map Score: 1.06114e-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: 1.06114e-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