AlignACE 3.0 10/20/99 AlignACE2 -i HI/HI_operons010_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944237512 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 HI0213 164 oligopeptide transporter, periplasmic-binding protein, putative #1 HI0213.1 119 H. influenzae predicted coding region HI0213.1 #2 HI0637 128 tryptophanyl-tRNA synthetase (trpS) #3 HI0851 300 molybdopterin-guanine dinucleotide biosynthesis protein B (mobB) #4 HI0853 140 heme-binding lipoprotein (dppA) #5 HI0861 191 virulence-associated protein (vacB) #6 HI0862 135 conserved hypothetical protein #7 HI1123 80 oligopeptide ABC transporter, permease protein (oppB) #8 HI1124 295 oligopeptide ABC transporter, periplasmic-binding protein (oppA) #9 HI1187 89 dipeptide ABC transporter, permease protein (dppB) #10 HI1188 300 DNA helicase II (uvrD) #11 HI1310 24 H. influenzae predicted coding region HI1310 #12 HI1311 148 phenylalanyl-tRNA synthetase, alpha subunit (pheS) #13 HI1312 33 phenylalanyl-tRNA synthetase, beta subunit (pheT) #14 HI1314 52 lipoprotein (nlpC) #15 HI1638 69 peptide ABC transporter, periplasmic-binding protein (sapA) #16 HI1733 82 exoribonuclease II (rnb) #17 HI1734 79 enoyl-(acyl-carrier-protein) reductase (fabI) Motif 1 AAAGAAAAATACCAAAATTTTTATTTTGACT 0 22 1 AGCATTTTTAACCTAGCTTTTGAACTCGAAC 2 44 1 TAATTTATTAACCCCGATCTTTCGGGGTTTT 3 263 1 ACCTCAATGTTAGGCAGGGAA 4 129 0 AATTTTTACCGCGCTTTTCATACTTTAA 5 7 1 TGTCAAACTCTCCGCACTTTTTAAAACTGTA 5 163 1 TCGTCAATTTTCATAAAATAT 6 0 1 GGGTTCCCTAACCCCGATTTATTTAAACTAA 6 103 1 GTCAAAAAATACGACGATTTTTAACCGCACT 7 27 0 GTATTTTTTGACCGCACTTTTCGCCCATTTT 7 46 1 GCCTCTCATATCATCACTTTTAGCAATTTTT 8 134 1 CAACTCACAAAACTCAATTTTTCTTCAAATA 8 183 1 GTAAAAATTCACCGCACTCTTCAAAGAAATT 9 40 0 GTGAATTTTTACCGCACTTTTATTATCTACG 9 59 1 ACTATTTATAAACAAACTTTTAATTCGTTTA 10 101 0 AAAATGTTCTACCCTACTTTTGATATACTCA 10 209 1 GTAGAAATTCACCGCACTTTTTGTTGCTTA 14 9 0 GTGAATTTCTACCGCACTTTTCATATGAAAA 14 28 1 GGGAAAATAGTCCACATTTTTAATTGAACAA 17 20 0 TGGACTATTTTCCCTGATTTTAGGTTTTTGC 17 37 1 *** ******* MAP Score: 32.1762 Motif 2 TAAATATAGCATTTTTAACCTAGCTTTTGAACTCGAAC 2 37 1 ATGAAATATTATTTTTTTGCTCATTATTGCTTATGCTT 3 93 1 GAGTGCGGTGAATTTTTACCGCACTTTTATTATCTACG 9 52 1 AATTTTTACCGCGCTTTTCATACTTTAA 5 0 1 ATTAGGCGATATTTTTATAAAAAGTCTTCTATTTATTA 8 252 0 TAAGCCAATGATTTTTCGCATTATTCTTTTACTTTTTA 12 57 1 AATCGTCGTATTTTTTGACCGCACTTTTCGCCCATTTT 7 39 1 CTTTTAGCAATTTTTTTAGCGATTTATTAGACACAACT 8 150 1 TCTTACATTCTTTTTTAGGCAGGCTTTTCAGTCTGCCT 16 14 1 ACAAAACTCAATTTTTCTTCAAATAATTTCCTGACAAA 8 189 1 AGAGTATTATATTTTTTACCGATTAATTTCTTTGAAGA 9 16 1 AAGTGCGGTGAATTTCTACCGCACTTTTCATATGAAAA 14 21 1 AACAGTGATGACTTTTTATAGATATTTTTAAAGTATGA 5 27 0 ATTTTTTAGATTTTTCAACCTTGATATTATAGAATTTG 1 49 0 GCCACATATTATTTTCCCTCCACTAATTGACGAAATTT 3 148 0 TCAAAATAAAAATTTTGGTATTTTTCTTTAATGATCGA 0 13 0 AAATGTTCCTTTTTTGAAAACTGTTTTTTTATGTGAC 1 9 1 AAAAATGTGGACTATTTTCCCTGATTTTAGGTTTTTGC 17 30 1 TTTTTATACTATTTATAAACAAACTTTTAATTCGTTTA 10 101 0 ACATTCTTAATTTATTAACCCCGATCTTTCGGGGTTTT 3 256 1 TATTCTTAAAATGTTCTACCCTACTTTTGATATACTCA 10 202 1 GAAAATGCAAACTATTATTACTGATTTTTTAGATTTTT 1 72 0 TACCAAAATTTTTATTTTGACTTTTGTTACCACAATGC 0 31 1 ****** * * ** MAP Score: 25.2825 Motif 3 AAATGCAAGGTTTCTCATTTTTCCAAAAATAC 10 56 0 CAGTCTGCCTTTTCTCTTTTTTAAAATAATAA 16 42 1 TATAAGCAAATTTCCCTTTTTTTAAATAAAAA 4 36 0 TGACCGCACTTTTCGCCCATTTTGGTTGGAGT 7 54 1 GGTGAATTTTTACCGCACTTTTATTATCTACG 9 58 1 AATTTTTACCGCGCTTTTCATACTTTAA 5 6 1 GGTGAATTTCTACCGCACTTTTCATATGAAAA 14 27 1 TTTCTCGGATTTGAATTAAAAG 13 0 1 AACCCCGATCTTTCGGGGTTTTCCGTATCTAA 3 272 1 GTGTCAAACTCTCCGCACTTTTTAAAACTGTA 5 162 1 GATCGTTAAGTTCTTCAATTTTAAAATATCCT 5 80 1 TGTGGACTATTTTCCCTGATTTTAGGTTTTTG 17 35 1 GGTATTATCATTACTCGGTTTTTTATTTTATA 12 102 1 ATAGTTTGCATTTTCCTTTTTTATTAGGAACA 1 95 1 TATCATCACTTTTAGCAATTTTTTTAGCGATT 8 142 1 GCCAATGATTTTTCGCATTATTCTTTTACTTT 12 60 1 GGTAGAAATTCACCGCACTTTTTGTTGCTTA 14 9 0 TAAGTTTTGGTTCTTCTTATTTTGGATTAAAA 0 136 1 AAAATAAAAATTTTGGTATTTTTCTTTAATGA 0 17 0 TTCGTTACTCGTATTTAAGTGCGGTT 7 4 1 ACGTATTCGCTATTCCATTTTTTCTTG 12 5 0 GCGAATACGTTATTCCATTTTTATTTTTGATA 12 27 1 TTCCGTTAAATATAGCATTTTTAACCTAGCTT 2 31 1 CGGAAACGTTTTCCTGATATTTACTA 2 4 0 TATTTTTTACAGTTTTAAAAAGTGCG 5 175 0 CAAACTATTATTACTGATTTTTTAGATTTTTC 1 71 0 TCGGGTTCCCTAACCCCGATTTATTTAAACTA 6 101 1 ****** **** MAP Score: 25.1835 Motif 4 TCGTCAATTTTCATAAAATATAAAACTCAAATGCA 6 9 1 AATCATTGGCTTATCAAAAATAAAAATGGAATAACG 12 34 0 TCGTTATTATTTTAAAAAAGAGAAAAGGCAGACTGA 16 41 0 TAATACCAAGTCCTTAAAAAGTAAAAGAATAATGCG 12 73 0 TTCTCTTTTCTCTATAAAATAAAAAACCGAGTAATG 12 110 0 CATGGGTATTTTTGGAAAAATGAGAAACCTTGCATT 10 51 1 TAGGAAAATATTTACAATAGGAAAAATCAATACATC 8 87 1 CTCTCCGCACTTTTTAAAACTGTAAAAAATA 5 170 1 TAGCATTGTGGTAACAAAAGTCAAAATAAAAATTTT 0 35 0 TAATATCAAGGTTGAAAAATCTAAAAAATCAGTAAT 1 58 1 GCAACCGCTTTTCCTAAAAGGATGAAATATTATTTT 3 72 1 AATTTCCCTTTTTTTAAATAAAAAAATTCTATGGAT 4 24 0 TCGGTTTTAATCCAAAATAAGAAGAACCAAAACTTA 0 136 0 AAGAAATTAATCGGTAAAAAATATAATACTCTTGAA 9 12 0 AAAAGTTTGTTTATAAATAGTATAAAAATAGCTTTC 10 111 1 AATGTTCCTAATAAAAAAGGAAAATGCAAACTAT 1 95 0 TAACCCCGATTTATTTAAACTAAAAAGGTACAAC 6 111 1 TTTAAGGATATTTTAAAATTGAAGAACTTAACGATC 5 80 0 TTTTCATACTTTAAAAATATCTATAAAAAGTCATCA 5 24 1 AATCAATCCTTAATACCTTAAAACTGTTCACA 2 106 0 AAATTCGTTTGAGCAAAAACCTAAAATCAGGGAAAA 17 44 0 AAAAAACAGTTTTCAAAAAAGGAACATTT 1 3 0 GTAGAACATTTTAAGAATAATATTAAGCGGGATTCT 10 185 0 ** **** **** MAP Score: 20.1354 Motif 5 AATAGTTTGCATTTTCCTTTTTTATTAGGAAC 1 94 1 AAATTTTGGTATTTTTCTTTAATGATCGATTT 0 10 0 ACAAAACTCAATTTTTCTTCAAATAATTTCCT 8 189 1 GCCACATATTATTTTCCCTCCACTAATTGACG 3 154 0 AATGTGGACTATTTTCCCTGATTTTAGGTTTT 17 33 1 GGATGTATTGATTTTTCCTATTGTAAATATTT 8 92 0 TATTGTAAATATTTTCCTACATAAATTACCCT 8 74 0 ACGTTATTCCATTTTTATTTTTGATAAGCCAA 12 33 1 CCCGCTTAATATTATTCTTAAAATGTTCTACC 10 190 1 GATTTTTCGCATTATTCTTTTACTTTTTAAGG 12 66 1 AAGGTTTCTCATTTTTCCAAAAATACCCATGA 10 50 0 TGTATTCTCCTTGAATGGACTTGTT 8 3 1 TATCCTAGCCATTTTTACTAATATGCCTTACA 15 14 1 TCGTCAATTTTCATAAAATATAAAACTC 6 6 1 AAATGTTCCTTTTTTGAAAACTGT 1 2 1 ATTAGGCGATATTTTTATAAAAAGTCTTCTAT 8 258 0 TTTGAAAGCTATTTTTATACTATTTATAAACA 10 118 0 AGGACTTGGTATTATCATTACTCGGTTTTTTA 12 95 1 ATTAAGCGGGATTCTCCTATATCCTTAAACTC 10 168 0 CGGGGATAAAATTATCACTGTATATTTTAAGG 5 109 0 AATGTTCCTAATAAAAAAGGAAA 1 106 0 AATGCAAACTATTATTACTGATTTTTTAGATT 1 75 0 ********* * MAP Score: 16.9045 Motif 6 AGTGCGGTCAAAAAATACGACGATTTTTAACCGCACTT 7 26 0 AGTGCGGTAGAAATTCACCGCACTTTTTGTTGCTTA 14 8 0 TTACAGTGTCAAACTCTCCGCACTTTTTAAAACTGTAA 5 157 1 TTTTGAGCTAATAAATAGAAGACTTTTTATAAAAATAT 8 244 1 ACATCATATCAGAAACTCTAGGCTTTTTTAATGTTCGA 2 69 0 AAGTCAAAATAAAAATTTTGGTATTTTTCTTTAATGAT 0 16 0 TTAATTTGTTATAATCCATAGAATTTTTTTATTTAAAA 4 11 1 ATTTCTTTGAAGAGTGCGGTGAATTTTTACCGCACTTT 9 41 1 TAGACACAACTCACAAAACTCAATTTTTCTTCAAATAA 8 177 1 TCTCATATCATCACTTTTAGCAATTTTTTTAGCGATTT 8 137 1 CCCAGCACTATAACAGTGATGACTTTTTATAGATATTT 5 38 0 TGACAAATCTTTACAAAAATGAATTTTTGAGCTAATAA 8 220 1 GGAATAGCGAATACGTTATTCCATTTTTATTTTTGATA 12 21 1 TGTTCAATTAAAAATGTGGACTATTTTCCCTGATTTTA 17 21 1 AAAATCAGTAATAATAGTTTGCATTTTCCTTTTTTATT 1 82 1 AATAAGATATAAGCAAATTTCCCTTTTTTTAAATAAAA 4 37 0 ATATTTTCCTACATAAATTACCCTTTTAATGCTAATTG 8 60 0 TCAATATCCTAGCCATTTTTACTAATATGC 15 2 1 AATTTTTACCGCGCTTTTCATACTTTAAA 5 1 1 TCTCTTTTTTAAAATAATAACGATGTTTCAAAATAACT 16 54 1 * * * * ****** MAP Score: 14.6673 Motif 7 AACCCCGAAAGATCGGGGTTAATAAATTAA 3 262 0 AACCCCGATCTTTCGGGGTTTTCCGTATCT 3 272 1 CCTCAATGTTAGGCAGGGAATGCCCTACCA 4 119 0 AAAGTATGAAAAGCGCGGTAAAAATT 5 6 0 GGATAATGCAAGACGGGGATAAAATTATCA 5 124 0 AGTTTAAATAAATCGGGGTTAGGGAACCCG 6 102 0 ACTCGTATTTAAGTGCGGTTAAAAATCGTC 7 16 1 ATGATATGAGAGGCGGGGGATCTAGGATGT 8 118 0 GAATAATATTAAGCGGGATTCTCCTATATC 10 177 0 AGTATATCAAAAGTAGGGTAGAACATTTTA 10 208 0 GAGAAAAGAGAAGCAGGGGAAACT 12 134 1 TTCATATGAAAAGTGCGGTAGAAATTCACC 14 27 0 ********** MAP Score: 0.105742