AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00950_hinf_reg_300.orf -o00950_hinf_300.ace -a/home/amcguire/genomes/ORF_hinf.txt -z/home/amcguire/genomes/hinf.fna -g0.38 -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 = 0.38 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 HI0329 37 conserved hypothetical protein #2 HI0330 98 opacity associated protein (oapA) #3 HI0331 59 opacity associated protein (oapB) #4 HI0549 169 dimethyladenosine transferase (ksgA) #5 HI0961 74 hit-related protein #6 HI0962 28 isoleucyl-tRNA synthetase (isoleucine--tRNA ligase) (ileRS) #7 HI0963 34 riboflavin kinase / FMN adenylyltransferase (ribF) #8 HI0964 300 virulence factor (mviN) #9 HI0974.1 300 conserved hypothetical protein #10 HI0976 119 conserved hypothetical protein #11 HI0978 40 ribosomal protein L11 methyltransferase (prmA) #12 HI1062 85 (3R)-hydroxymyristol (acyl carrier protein) dehydrase (fabZ) #13 HI1064 56 conserved hypothetical protein #14 HI1560 22 H. influenzae predicted coding region HI1560 #15 HI1561 106 peptide chain release factor 1 (prfA) #16 HI1562 252 H. influenzae predicted coding region HI1562 #17 HI1563 32 conserved hypothetical protein #18 HI1564 32 H. influenzae predicted coding region HI1564 #19 HI1564.1 284 H. influenzae predicted coding region HI1564.1 #20 HI1615 160 phosphoribosylaminoimidazole carboxylase, catalytic subunit (purE) #21 HI1616 69 phosphoribosylaminoimidazole carboxylase, ATPase subunit (purK) #22 HI1617 138 aspartate aminotransferase (aspC) Motif number 1 CGGCGAAAAAATTATGTGTATTTTATCGGATC 2 7 0 ATTATTTTAT 0.91125 -92 AAACGGGCGGATTATAGCCGTTTTTAGCTTTCTACG 4 32 1 ATTGTTTTTA 0.856816 -138 TTTATTTTCCAATTTTTACATTTTAAAA 6 3 0 ATTATTTTAA 0.831344 -26 AAAGGGCATCAATATGCCGATTTTTTATACTTTTGT 8 43 1 ATTATTTTTT 0.974908 -258 ACCGAAAGTAAGTATCGTTATTTTTACAAGCTCTTT 8 114 1 ATTATTTTTA 0.949118 -187 TGTGTGGCGGATTTTATCAGTTTTTTTTCACGGAAT 8 172 1 ATTGTTTTTT 0.925733 -129 GGACTGATGCATATTCCTTATTTTTTTGACGAATAC 9 24 0 AATATTTTTT 0.676774 -277 TGTGTTTGCTAATCTTACAACTTTTTTGAATAATTC 9 198 0 ATTACTTTTT 0.900642 -103 GGTGATATTTAATTTTCTCACTTTCAGCAATTTCTA 10 53 1 ATTACTTTCA 0.693186 -67 TCCTTTCAAAATTTTGCGTATTTTTACCGCACT 11 8 0 ATTATTTTTA 0.949118 -33 CGATAGATTTTATTTGTTTATTTTTTGTAAGGTATC 12 57 1 TTTATTTTTT 0.793837 -29 TATTTTATAGAATAAGCCAATTTTTTAAGCCAGAAG 13 20 0 ATAATTTTTT 0.735344 -37 AATCGGCTAGAATACGCCGATTTTATTTTCGGTGAC 15 75 1 ATCATTTTAT 0.826042 -32 AAAGTGAGCAATTTTGATCACTTTCTGCCA 16 5 0 ATTACTTTCT 0.824752 -248 CTCCTAATTAAATAGTTCAATTTTTAATCATTTCAC 16 66 1 ATGATTTTTA 0.664202 -187 TTCTTCTTTAATTGCTTCAATTTTTTCTTGAAGATC 16 224 0 ATCATTTTTT 0.947284 -29 TATAATCTTGCGGTTTTTTAGGAGTCGAT 17 4 1 ATTGTTTTTT 0.925733 -29 AGCTTAAATTTGAAGATTTTCAAGTAACTACT 18 7 1 ATTATTTTCA 0.906406 -26 ATGTTTGAGAATTATTATTATTTTTTTTATAGGACT 19 73 0 ATTATTTTTT 0.974909 -212 GAATAGTTTTTATTTCTTGATTTTTATCAAAAATCA 19 148 0 TTTATTTTTA 0.648941 -137 AATAAAAACTATTCTTATTATTTTCTGTATTTAAAC 19 170 1 ATTATTTTCT 0.95277 -115 GCTATTTTCTCAATTTTCTAATTAAAAAC 20 142 0 ATTATTTTCT 0.95277 -19 GCACTTTTAAAGTGCGGTTGTTTTTTTCGTAAATTT 21 31 1 ATCGTTTTTT 0.852174 -39 TTCATCAAAAAGTGCGGTCATTTTTTACA 22 4 0 ATCATTTTTT 0.947284 -135 ATAGTTTTATACTTCAGTCATTTTATTTTATCAAGA 22 82 0 ATCATTTTAT 0.826043 -57 * * * ******* Masking position 12 Map Score: 30.8982 Number of sites scoring better than the average of aligned sites = 525 Number in coding regions = 347 Number in noncoding regions = 178 Number of orfs with sites within 600 bp upstream = 162 Fraction of orfs with sites within 600 bp upstream = 0.0260199 Motif number 2 GAGAAGCTCAAAAGTGCGGCGAAAAAATTA 2 29 0 AAAGTGCGGC 0.992181 -70 TTTAATAAGAAAAGTGCGGTTATTATAGGG 4 142 0 AAAGTGCGGT 0.997576 -28 TGTAAAACAAAAAGTGCGATTGATTTGCTC 5 21 1 AAAGTGCGAT 0.981643 -54 CCGCACTTTAAAAGTGCGGTCAGATCTAAA 21 18 0 AAAGTGCGGT 0.997576 -52 CCGCACTTTTAAAGTGCGGTTGTTTTTTTC 21 29 1 AAAGTGCGGT 0.997576 -41 TATTCATCAAAAAGTGCGGTCATTTTTTAC 22 12 0 AAAGTGCGGT 0.997576 -127 TAAAAATATCAAAGCGTGGTTAATTTTTAT 22 44 1 AAAGCGTGGT 0.942718 -95 ********** Masking position 3 Map Score: 19.1067 Number of sites scoring better than the average of aligned sites = 1115 Number in coding regions = 700 Number in noncoding regions = 415 Number of orfs with sites within 600 bp upstream = 285 Fraction of orfs with sites within 600 bp upstream = 0.0457758 Motif number 3 AAGTACTATTTAATAAGAAAAGTGCGGTT 4 151 0 TATTTAAGAA 0.873511 -19 GAATTTCGGCATTATAGCGAGAAG 7 2 0 ATTATAAGAA 0.888 -33 ATAAAAATCGAATTTACGTAGAAATCAGCAAAA 9 159 1 AATTTAAGAA 0.888 -142 TTATAAAAAATTTTAAGGAAGAAAT 9 286 1 TTTTAAAGAA 0.873435 -15 TTATACGATATTTATAGCTAAAAATAAAACGCA 12 22 0 TTTATAAAAA 0.536919 -64 TAAGCCAATTTTTTAAGCCAGAAGGAAAAAACA 13 11 0 TTTTAAAGAA 0.874568 -46 ATTCTAGCCGATTTTAGGGAAAATTGACAGCGA 15 55 0 ATTTTAAAAA 0.775885 -52 AAATTGAAGCAATTAAAGAAGAATTG 16 237 1 AATTAAAGAA 0.751331 -16 TCTCAAACATATTATATGAAGAAAGGTATTTTC 19 99 1 ATTATAAGAA 0.888 -186 TATTTCTTGATTTTTATCAAAAATCAATCTTTA 19 141 0 TTTTTAAAAA 0.709776 -144 AACAAGCAGGTTTAAATACAGAAAATAATAAGA 19 182 0 TTTAAAAGAA 0.726611 -103 CCTAAGCACAATTTTTATAAGAATAGGTCAAAT 20 12 0 ATTTTTAGAA 0.654907 -149 CTACGCCACGTTTTTAATTAGAAAATTGAGAAA 20 133 1 TTTTTAAGAA 0.926933 -28 TTTTTTCGTAAATTTAACGAGAAATATT 21 52 1 AATTTAAGAA 0.888 -18 CAGTCATTTTATTTTATCAAGAAAGATTTTATA 22 71 0 ATTTTAAGAA 0.954114 -68 ****** **** Masking position 10 Map Score: 14.6527 Number of sites scoring better than the average of aligned sites = 240 Number in coding regions = 165 Number in noncoding regions = 75 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 4 TCCGATAAAATACACATAATTTTTTCGCCGCAC 2 13 1 TACAAATTTT 0.919353 -86 TTATATTAATTAGCCACAAAATTGAGAAGCTCA 2 49 0 TACAAAAATT 0.961776 -50 TGTCTATCAATCAACAGAAATTTTAGGA 8 6 0 TCCAAAATTT 0.930453 -295 CTCACCGAAATCAACACAAATTTTCCATTGACA 8 76 0 TCCAAAATTT 0.930453 -225 GAATATAGCGTAAAAACAAAATTTCTATACAAT 8 204 1 TAAAAAAATT 0.77758 -97 TCTATACAATTAGGCAAAAATTTTAGGGTAGAG 8 227 1 TACAAAATTT 0.956773 -74 AAAAGTCGTTTACTCAAAATATTCTTCTCTACC 8 253 0 TACAAATATT 0.928362 -48 TTATCGGTATTCGTCAAAAAAATAAGGAATATG 9 18 1 TCCAAAAAAT 0.599504 -283 CCTTTTGAATTATTCAAAAAAGTTGTAAGATTA 9 192 1 TACAAAAAGT 0.785887 -109 TACTTTCACTTATAAAAAATTTTAAGGAAGAAA 9 277 1 TAAAAATTTT 0.612985 -24 GCGGTAAAAATACGCAAAATTTTGAAAGGAAAA 11 14 1 TACAAATTTT 0.919353 -27 AGCCTGATCTTCAAGAAAAAATTGAAGCAATTA 16 219 1 TCGAAAAATT 0.765735 -34 AATTTTATCCTAAGCACAATTTTTATAAGAATA 20 20 0 TACAAATTTT 0.919353 -141 ATTGCAACTTTAAGGATAAAATTTTATCCTAAG 20 39 0 TAGAAAAATT 0.843937 -122 GCCACGTTTTTAATTAGAAAATTGAGAAAATAG 20 137 1 TATAAAAATT 0.664719 -24 ** ** ****** Masking position 6 Map Score: 12.124 Number of sites scoring better than the average of aligned sites = 248 Number in coding regions = 193 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 5 ACTTAAAAAGAAAAAGGGGCGATTACTCGCCCAAAAAA 3 9 0 AAAAGGCTGC 0.996443 -51 AAAAGTTAAGAAAAACGGGCGGATTATAGCCGTTTTTAGC 4 20 1 AAAAGGCTGC 0.996443 -150 CAAAAGTATAAAAAATCGGCATATTGATGCCCTTTATTTT 8 38 0 AAAAGGCAGC 0.991862 -263 TCACCGAAAATAAAATCGGCGTATTCTAGCCGATTTTAGG 15 70 0 TAAAGGCTGC 0.991862 -37 AAAACACACTAAAACAAGGCGACAATATGCTTGCTAATCC 16 165 0 AAAAGGCAGC 0.991861 -88 ACATCTTACATATATCAGGCAAACGTTTGCTAAATGGCTT 20 87 0 TATAGGCTGC 0.96198 -74 TTTCTAATTAAAAACGTGGCGTAGAATAGCACATCTTACA 20 117 0 AAAAGGCTGC 0.996443 -44 **** *** * ** Masking position 4 Map Score: 10.2831 Number of sites scoring better than the average of aligned sites = 16 Number in coding regions = 9 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 6 GATCCGATAAAATACACATAATTTT 2 5 1 CGAAAAATAC 0.879701 -94 AAAAGTGCGGCGAAAAAATTATGTGTATTTT 2 19 0 CGAAAAATTA 0.857488 -80 AATCCTACCTTGAGAAAAGAACTTAAAAAGA 3 38 0 TGAAAAAGAA 0.879353 -22 TTTCTACGAAAGAAAAAATAATATTGTTCAT 4 60 1 AGAAAAATAA 0.810857 -110 TTTTAAAATGTAAAAATTGGAAAATAAA 6 9 1 TGTAAAATTG 0.601244 -20 GTTGATTGATAGACAAAATAAAGGGCATCAA 8 24 1 AGAAAAATAA 0.810857 -277 AATTTTCCATTGACAAAAGTATAAAAAATCG 8 60 0 TGAAAAAGTA 0.866769 -241 TGAAAGAGCTTGTAAAAATAACGATACTTAC 8 121 0 TGTAAAATAA 0.697014 -180 GAAAAAAAACTGATAAAATCCGCCACACATC 8 170 0 TGAAAAATCC 0.877708 -131 CTATATTCCGTGAAAAAAAACTGATAAAATC 8 181 0 TGAAAAAAAC 0.867505 -120 TTTATGAATATGATAAAAATCGAATTTACGT 9 147 1 TGAAAAAATC 0.853891 -154 TTGCTGAAAGTGAGAAAATTAAATATCACCT 10 52 0 TGAAAAATTA 0.938976 -68 GGCTTAAGACTGAAAAAAGTGAGCAATTTTG 16 25 0 TGAAAAAGTG 0.826904 -228 CTGATCTTCAAGAAAAAATTGAAGCAATTAA 16 222 1 AGAAAAATTG 0.73752 -31 TTTATTGTTGTGAGAAAATACCTTTCTTCAT 19 114 0 TGAAAAATAC 0.94924 -171 GATTGATTTTTGATAAAAATCAAGAAATAAA 19 145 1 TGAAAAAATC 0.853891 -140 ATTAGAAAATTGAGAAAATAGC 20 149 1 TGAAAAATAG 0.926785 -12 GTTAAATTTACGAAAAAAACAACCGCACTTT 21 39 0 CGAAAAAACA 0.475294 -31 AAATCTTTCTTGATAAAATAAAATGACTGAA 22 75 1 TGAAAAATAA 0.945171 -64 *** ******* Masking position 6 Map Score: 19.038 Number of sites scoring better than the average of aligned sites = 460 Number in coding regions = 368 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 100 Fraction of orfs with sites within 600 bp upstream = 0.0160617 Motif number 7 AACCCCTATAATAACCGCACTTTTCTTATT 4 139 1 ATAACCGCAC 0.992098 -31 ACAGAGCAAATCAATCGCACTTTTTGTTTT 5 24 0 TCAATCGCAC 0.854515 -51 TTTGCGTATTTTTACCGCACT 11 2 0 TTTACCGCAC 0.953387 -39 ATTCTATAAAATAACCGCTCAAGA 13 43 1 ATAACCGCTC 0.963054 -14 ATCTTTAGATCTGACCGCACTTTTAAAGTG 21 15 1 CTGACCGCAC 0.979119 -55 TACGAAAAAAACAACCGCACTTTAAAAGTG 21 32 0 ACAACCGCAC 0.988302 -38 TGTAAAAAATGACCGCACTTTTTGATGA 22 9 1 ATGACCGCAC 0.990484 -130 ********** Masking position 4 Map Score: 7.88772 Number of sites scoring better than the average of aligned sites = 858 Number in coding regions = 569 Number in noncoding regions = 289 Number of orfs with sites within 600 bp upstream = 213 Fraction of orfs with sites within 600 bp upstream = 0.0342114 Motif number 8 ACCATCTCTCATTTTTAGGATATTTCAAAT 1 11 0 ATTTTTAGGA 0.935204 -27 AAAGTGCGGTTATTATAGGGGTTGTTTTAG 4 132 0 TATTATAGGG 0.817688 -38 TTTAGTCTAACTTTTAAGGACAGAGCAAAT 5 43 0 CTTTTAAGGA 0.748039 -32 AATCAACAGAAATTTTAGGA 8 1 0 AATTTTAGGA 0.923929 -300 ATTAGGCAAAAATTTTAGGGTAGAGAAGAA 8 235 1 AATTTTAGGG 0.883817 -66 CTTATAAAAAATTTTAAGGAAGAAAT 9 285 1 ATTTTAAGGA 0.781712 -16 TATTCTAGCCGATTTTAGGGAAAATTGACA 15 59 0 GATTTTAGGG 0.774106 -48 AATCTTGCGGTTTTTTAGGAGTCGATACC 17 14 1 TTTTTTAGGA 0.935203 -19 TTATTATTTTTTTTATAGGACTAAATATGA 19 65 0 TTTTATAGGA 0.894842 -220 CAACGGCTCGCATTATAGGAAACAAGCAGG 19 205 0 CATTATAGGA 0.855841 -80 GCTAAATGGCTTTTATAGGAAAATACCATT 20 69 0 TTTTATAGGA 0.894842 -92 ********** Masking position 7 Map Score: 8.7699 Number of sites scoring better than the average of aligned sites = 140 Number in coding regions = 86 Number in noncoding regions = 54 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 9 TTTTTTGGGCGAGTAATCGCCCCTTTTTCTT 3 8 1 GGCGGATGCC 0.561353 -52 AAGAAAAACGGGCGGATTATAGCCGTTTTTAGCT 4 27 1 GGCGATTGCC 0.994827 -143 ATAAAAAATCGGCATATTGATGCCCTTTATTTTG 8 37 0 GGCAATAGCC 0.838661 -264 AACGATGTGTGGCGGATTTTATCAGTTTTTTTTC 8 167 1 GGCGATTTCA 0.872956 -134 GATGTATCCCTGTGAATTGTTGCAATTCTATGTT 10 95 0 TGTGATTGCA 0.702895 -25 TTCAAAATTTTGCGTATTTTTACCGCACT 11 6 0 TGCGATTACC 0.772609 -35 AAATAAAATCGGCGTATTCTAGCCGATTTTAGGG 15 69 0 GGCGATTGCC 0.913783 -38 AGGATTAGCAAGCATATTGTCGCCTTGTTTTAGT 16 164 1 AGCAATTGCC 0.931448 -89 GTAGTTGTAGGGTGGGCTTTAGCCCACCAAAAAA 19 246 1 GGTGGTTGCC 0.945261 -39 AAAGCCATTTAGCAAACGTTTGCCTGATATATGT 20 86 1 AGCAAGTGCC 0.614043 -75 TTAAAAACGTGGCGTAGAATAGCACATCTTACAT 20 116 0 GGCGAATGCA 0.956124 -45 **** * * * *** Masking position 13 Map Score: 6.60333 Number of sites scoring better than the average of aligned sites = 171 Number in coding regions = 137 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 10 ATGATTTACAAAGCTAAAACAACCCCTATAA 4 119 1 AGCTAAAACA 0.971992 -51 TTAAATTCATTGTAAAACAAAAAGTGCGA 5 9 1 ATGTAAAACA 0.897777 -66 AGCAATTTCTACGCTAAAACATAGAATTGCA 10 78 1 AGCTAAAACA 0.971992 -42 AAAATTTTGAAAGGAAAAACAA 11 29 1 AGGAAAAACA 0.933023 -12 TTAAGCCAGAAGGAAAAAACA 13 1 0 AGAAAAAACA 0.836259 -56 TGTTTTGGCAAATCAAAAACACACTAAAACA 16 189 0 ATCAAAAACA 0.928081 -64 AATAATAATAATTCTCAAACATATTATATGA 19 87 1 ATCTCAAACA 0.837933 -198 * ********* Masking position 7 Map Score: 2.07509 Number of sites scoring better than the average of aligned sites = 109 Number in coding regions = 90 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 11 TATAAATAAGAACAAGCATCAGAGGCAATCC 2 77 1 ACAAGCATCA 0.862308 -22 AGTTAGACTAAATAAGCAACAATT 5 61 1 ATAAGCAACA 0.935752 -14 TATTTTGTCTATCAATCAACAGAAATTTTAG 8 13 0 ACAATCAACA 0.897915 -288 AAAAATAAGGAATATGCATCAGTCCTTACTA 9 35 1 ATATGCATCA 0.908662 -266 AAAGGTAACAAGTAATCATCCTTTTTATGAA 9 124 1 ATAATCATCC 0.810105 -177 AACCTTTTGAATTATTCAAAAAAGTTGTAAG 9 190 1 ATATTCAAAA 0.578019 -111 GTATTAATCAATATGCTGTCACC 10 3 1 ATAATCAATA 0.667266 -117 CCCTACAACTACTAATCAACAATCAACGGCT 19 227 0 ATAATCAACA 0.953393 -58 GATATTTTTAAATATTCATCAAAAAGTGCGG 22 23 0 ATATTCATCA 0.93321 -116 GAAGTATAAAACTATTCATCACACAACACAT 22 103 1 ATATTCATCA 0.93321 -36 * ********* Masking position 4 Map Score: 5.33366 Number of sites scoring better than the average of aligned sites = 137 Number in coding regions = 120 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 12 AAATTTGTGTTGATTTCGGTGAGACACAACC 8 86 1 TGTTTCGGTG 0.978312 -215 TAACGATACTTACTTTCGGTTGTGTCTCACC 8 103 0 TATTTCGGTT 0.950466 -198 GTTTTTACGCTATATTCCGTGAAAAAAAACT 8 190 0 TAATTCCGTG 0.896309 -111 ACGACCAAGATAATTTCGGTGTAATTCCCCA 9 89 0 TATTTCGGTG 0.990112 -212 ACGCCGATTTTATTTTCGGTGACTTACAA 15 88 1 TATTTCGGTG 0.990112 -19 ** ******** Masking position 6 Map Score: 1.9609 Number of sites scoring better than the average of aligned sites = 20 Number in coding regions = 16 Number in noncoding regions = 4 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467 Motif number 13 TTATTTTTTCTTTCGTAGAAAGCTAAAAAC 4 51 0 TTTCGTAGAA 0.900209 -119 TCACGGAATATAGCGTAAAAACAAAATTTC 8 199 1 TAGCGTAAAA 0.928194 -102 CCTTACTATCTGGCATAGAAACTTTCATAT 9 58 1 TGGCATAGAA 0.906231 -243 AAAATCGAATTTACGTAGAAATCAGCAAAA 9 162 1 TTACGTAGAA 0.83649 -139 TTCTATGTTTTAGCGTAGAAATTGCTGAAA 10 74 0 TAGCGTAGAA 0.979332 -46 TAGCTATAAATATCGTATAATCCGATAGAT 12 35 1 TATCGTATAA 0.666636 -51 TTTTTCCTTCTGGCTTAAAAAATTGGCTTA 13 14 1 TGGCTTAAAA 0.725006 -43 ATTAAAAACGTGGCGTAGAATAGCACATCT 20 121 0 TGGCGTAGAA 0.986757 -40 ********** Masking position 7 Map Score: 3.24978 Number of sites scoring better than the average of aligned sites = 236 Number in coding regions = 216 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 Motif number 14 TTCAAACCATCTCTCATTTTTAGGATATTT 1 16 0 CTCTCATTTT 0.929526 -22 ACTTTTGAGCTTCTCAATTTTGTGGCTAAT 2 44 1 TTCTCAATTT 0.903823 -55 CTGATGCTTGTTCTTATTTATATTAATTAG 2 69 0 TTCTTATTTA 0.878657 -30 AACCGCACTTTTCTTATTAAATAGTACTT 4 151 1 TTCTTATTAA 0.618653 -19 TGCCGAAATTCTCTTATTTTC 7 24 1 CTCTTATTTT 0.919265 -11 TGATGCATATTCCTTATTTTTTTGACGAAT 9 26 0 TCCTTATTTT 0.7776 -275 TATCACCTTCCTCTCATTTAGAAGAAGGTG 10 30 0 CTCTCATTTA 0.824233 -90 ATATTTAATTTTCTCACTTTCAGCAATTTC 10 57 1 TTCTCACTTT 0.846447 -63 GCGTCTGAGATTCTTAATTTCCTTTTCGCT 15 30 1 TTCTTAATTT 0.89026 -77 TTGAGAATTATTATTATTTTTTTTATAGGA 19 75 0 TTATTATTTT 0.593722 -210 ATAAAAACTATTCTTATTATTTTCTGTATT 19 171 1 TTCTTATTAT 0.820251 -114 GCTATTTTCTCAATTTTCTAATTAAA 20 145 0 TTCTCAATTT 0.903823 -16 ********** Masking position 6 Map Score: 7.68899 Number of sites scoring better than the average of aligned sites = 248 Number in coding regions = 182 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 68 Fraction of orfs with sites within 600 bp upstream = 0.0109219 Motif number 15 TTAATTAGCCACAAAATTGAGAAGCTCAAA 2 47 0 ACAAAATTGA 0.838624 -52 GTTAGGTTATGCCAAATTGAGTTTTTCATG 4 88 0 GCCAAATTGA 0.955361 -82 ATAAAAAATCGGCATATTGATGCCCTTTAT 8 41 0 GGCATATTGA 0.970292 -260 TTTGTGTGAGCCCATATTGAAAGAGCTTGT 8 139 0 CCCATATTGA 0.881729 -162 AGAAGGTGACAGCATATTGATTAATAC 10 8 0 AGCATATTGA 0.953655 -112 GCTATATTGAGTGCGTTTTA 12 1 1 GCTATATTGA 0.802718 -85 CCGATTTTAGGGAAAATTGACAGCGAAAAG 15 51 0 GGAAAATTGA 0.912014 -56 AGGATTAGCAAGCATATTGTCGCCTTGTTT 16 164 1 AGCATATTGT 0.764024 -89 GTTTTTAATTAGAAAATTGAGAAAATAGC 20 142 1 AGAAAATTGA 0.867257 -19 ********** Masking position 6 Map Score: 4.90453 Number of sites scoring better than the average of aligned sites = 140 Number in coding regions = 130 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555