AlignACE 3.0 10/20/99 AlignACE2 -i MP/MP_sum_all001_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944247601 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 hisS 26 Mycoplasma pneumoniae, histidyl-tRNA synthetase; similar to Swiss-Prot Accession Number P30053, from S. equisimilis #1 tuf 84 Mycoplasma pneumoniae, elongation factor TU; similar to Swiss-Prot Accession Number P13927, from M. genitalium #2 rpsO 157 Mycoplasma pneumoniae, ribosomal protein S15; similar to Swiss-Prot Accession Number P05766, from B. stearothermophilus #3 MG422 45 Mycoplasma pneumoniae, MG422 homolog, from M. genitalium #4 rplM 30 Mycoplasma pneumoniae, ribosomal protein L13; similar to Swiss-Prot Accession Number P02410, from E. coli #5 rplL 37 Mycoplasma pneumoniae, ribosomal protein L7/L12 ('A' type); similar to Swiss-Prot Accession Number P02395, from M. luteus #6 rpsJ 117 Mycoplasma pneumoniae, ribosomal protein L10; similar to Swiss-Prot Accession Number P38518, from T. maritima #7 clpB 175 Mycoplasma pneumoniae, ATP-dependent protease binding subunit ClpB; similar to GenBank Accession Number F64098, from H. influenzae #8 MG342 300 Mycoplasma pneumoniae, MG342 homolog, from M. genitalium #9 rpoB 92 Mycoplasma pneumoniae, RNA polymerase beta subunit; similar to Swiss-Prot Accession Number P37870, from B. subtilis #10 MG328 300 Mycoplasma pneumoniae, MG328 homolog, from M. genitalium #11 MG313 116 Mycoplasma pneumoniae, MG313 homolog; similar to GenBank Accession Number L38997, from M. genitalium #12 hmw1 63 Mycoplasma pneumoniae, cytadherence accessory protein HMW1; similar to GenBank Accession Number L38997_6, from M. pneumoniae #13 rpsD 22 Mycoplasma pneumoniae, ribosomal protein S4; similar to Swiss-Prot Accession Number P21466, from B. subtilis #14 cbiO 157 Mycoplasma pneumoniae, abc transport ATP-binding protein; similar to Swiss-Prot Accession Number Q05596, from S. typhimurium #15 lysS 44 Mycoplasma pneumoniae, lysyl-tRNA synthetase; similar to Swiss-Prot Accession Number P37477, from B. subtilis #16 pgiB 21 Mycoplasma pneumoniae, phosphoglucose isomerase B; similar to Swiss-Prot Accession Number P13376, from B. stearothermophilus #17 fus 22 Mycoplasma pneumoniae, elongation factor G; similar to Swiss-Prot Accession Number P13551, from T. aquaticus #18 rpsG 53 Mycoplasma pneumoniae, ribosomal protein S7; similar to Swiss-Prot Accession Number P22744, from B. stearothermophilus #19 rpsL 28 Mycoplasma pneumoniae, ribosomal protein S12; similar to Swiss-Prot Accession Number P09901, from B. stearothermophilus #20 rplK 55 Mycoplasma pneumoniae, ribosomal protein L11; similar to Swiss-Prot Accession Number P29395, from T. maritima #21 oppB 275 Mycoplasma pneumoniae, oligopeptide transport system permease protein OppB; similar to Swiss-Prot Accession Number P24138 and P24691, from B. subtilis #22 rpsJ 93 Mycoplasma pneumoniae, ribosomal protein S10; similar to Swiss-Prot Accession Number P38518, from T. maritima #23 VXpSPT7_orf112 246 Mycoplasma pneumoniae, VXpSPT7_orf112 Protein #24 infB 280 Mycoplasma pneumoniae, protein synthesis initiation factor 2; similar to Swiss-Prot Accession Number P04766, from B. stearothermophilus Motif 1 CTTTGTTTAATTATAATTGGGCGACT 0 8 0 CTTAAGGTGGTTGTTTTGGTTTATTTATTATAAGTTT 2 54 1 CCCTTAGTCTTATTGATTTTAGTACTAGGG 3 25 0 TTTAATTTAGTTATGTTATTATTAACCTGCAAT 6 6 1 TAAAAACTCGTTATTTTCTTTGGTTTATTGCAGGTTA 6 32 0 CAGCTTGCAGTTATTCTCTTTTATCGTGATCAAAGGT 8 49 0 CTTAATTTAATTTTTAGTTTTCTTTTTTGCAACCAAT 8 216 0 TGTTAGTGGCTTTTTACTGTTATTTTTAGCCCTTTTT 9 56 1 GCAAACTTTGTTCGTTTAAGTTTTCGTCAAAATCGTG 10 17 0 GGAACTGTTATTGTTTCCCTTGTTGGTTCTAGGGTAA 10 84 0 AATTCGCAATTTTTTTCACTTTATGGTAGATATGGTG 10 187 1 GTACCACGCCTTCTTTATCTTTTTGTTTCCGTATTAC 11 38 1 TAAACTGCTCTTTTTTTATGTCTTATTTGACCTGTAA 14 45 1 TTTTAAACCATTTTTTCAATTAGTCTTATTTTTAAAA 14 110 1 TTTAAGTTTTTATTTTTAAATTTTAAAAATAAG 14 134 0 AAGATAATAATTTTTTAAATTTGTCTTCG 15 25 1 ATAAAGTTAATTGATTGAGTTAATGTTTTTCGTAAAA 18 26 0 TCCTTTTTCTTTTTTATTAGTATTCGAAAGTGTTCAA 21 211 1 ATCTCAGTTCTTAAGGGTGAAATTTGATGGTCAA 22 69 0 TTTTTTGCTGTTAGTAAGTTTCTTTTAACAATTAAAT 23 56 1 GGGTTACTACTTTTTTGAAGTTGTTTAATTTCAATGA 23 132 1 TTTAAGCGTTTTTGTAACAGTGCTTTAAAGTTTTTCC 24 191 0 ** *** ** * ** MAP Score: 17.1754 Motif 2 TCGCCCAATTATAATTAAACAAAG 0 12 1 TAACCTGCAATAAACCAAAGAAAATAACGAGTTT 6 32 1 ACCGTCTTTATAAATGAAAGAGAGCAGCACTTGG 7 24 1 TGGTGGTTATAAAGTAAAAGAGAGCCAACCCCCA 7 55 0 TTACTTTATAACCACCAAAAAAGGTAAATCTTTA 7 72 1 TAATTGGCCTATTAACAAAGAAAGGGGATAAAAT 7 149 1 ACCTTTGATCACGATAAAAGAGAATAACTGCAAG 8 49 1 GATGAGTTTTATAAGGAAAAAGCACAAGCAAAAA 8 100 1 ACTTATTAAGTTGATCAAAGAAAGAAAAGCTCAA 8 141 1 CGAAATTGGTTGCAAAAAAGAAAACTAAAAATTA 8 212 1 TGATCCTATTTATATAAAAGAAAATTGTTAATTA 8 265 0 TCGTGTACAAAAAAGGGCTAAAAATAA 9 75 0 ATTAGATCAGTTAGAGAAAGAACAATCAATTCGC 10 160 1 ACGGAAACAAAAAGATAAAGAAGGCGTGGTACTT 11 36 0 GTTGCAGTAGATCAATAAAAAGAGGGCAGTTAAA 14 15 1 CAAATAAGACATAAAAAAAGAGCAGTTTAACTGC 14 40 0 AATCAACTAAAAAAAGGATTT 16 2 1 GTTAATGTTTTTCGTAAAAAAAGGAATTTAAGAT 18 11 0 TTCAAAACATTCTACAAAAAAACGATACTAGTAA 21 14 0 TTCGAATACTAATAAAAAAGAAAAAGGAACCTGG 21 205 0 ACACAATAAGATCGCCAAAAAGCGGGGTTACTAC 23 108 1 * * ******** MAP Score: 15.3662 Motif 3 AGTCGCCCAATTATAATTAAACAAAG 0 10 1 CCCAAACTTATAATAAATAAACCAAAACAAC 2 63 0 CATAAATAATTAATAAGTAAATATAAAA 5 19 1 GATAACTTTTTTAAAGTTAAAAACTCGTTAT 6 55 0 AAACCGTCTTTATAAATGAAAGAGAGCAGCA 7 22 1 TTTTGGTGGTTATAAAGTAAAAGAGAGCCAA 7 61 0 ATTGGCCTATTAACAAAGAAAGGGGATAAAA 7 151 1 CTGATGAGTTTTATAAGGAAAAAGCACAAGC 8 98 1 AAAAGAAAACTAAAAATTAAATTAAGTTTTC 8 227 1 ATCCTATTTATATAAAAGAAAATTGTTAATT 8 266 0 TTCAAACTATTAAAAACTAAGTACCACGCCT 11 18 1 TTTTTAAATTTTAAAAATAAGACTAATTGAA 14 124 0 TTTTTAAAATTTAAAAATAAAAACTTAAA 14 138 1 TAATTGCTTAAAATTAAGATAATAATTT 15 7 1 CGAATACTAATAAAAAAGAAAAAGGAACCTG 21 206 0 AAGTTTCTTTTAACAATTAAATGGGTCTTTT 23 71 1 ACAAAAACGCTTAAAGGTAAGCTGTTCTGAC 24 213 1 TTATTGCTTGTTTAAAGGAAAGGGAAAGCG 24 260 1 ****** **** MAP Score: 14.78 Motif 4 CCCAAGTGCTGCTCTCTTTCATTTATAAAG 7 29 0 TTGGGGGTTGGCTCTCTTTTACTTTATAAC 7 54 1 GCTAAAGATTTACCTTTTTTGGTGGTTATA 7 78 0 TTGCAGTTATTCTCTTTTATCGTGATCAAA 8 52 0 ATTTTTGCTTGTGCTTTTTCCTTATAAAAC 8 105 0 AATTTTTAGTTTTCTTTTTTGCAACCAATT 8 215 0 AATTAACAATTTTCTTTTATATAAATAGGA 8 266 1 TTAGCATGCGGCCCTTTTGTCGCTGTTAGT 9 33 1 GTTATTTTTAGCCCTTTTTTGTACACGA 9 74 1 ACTTTTGTAAGCTCTTTTTTC 12 52 1 CAGTTTAACTGCCCTCTTTTTATTGATCTA 14 22 0 CAGTTAAACTGCTCTTTTTTTATGTCTTAT 14 41 1 AAATCCTTTTTTTAGTTGATT 16 9 0 TATCTTAAATTCCTTTTTTTACGAAAAAC 18 9 1 GAGAACCAGGTTCCTTTTTCTTTTTTATTA 21 200 1 TTTTAGCTTGGAGCTTTTTTGCTGTTAGTA 23 42 1 ACTAATTCCTTATCTTTTTCCAAACTAGTT 23 201 0 ********** MAP Score: 14.1329 Motif 5 CTCTCTACAGCTTTATCTCAAACTTATGTAAAATTAG 1 40 1 CTCTCTTTTACTTTATAACCACCAAAAAAGGTAAATC 7 65 1 CTTGAGCTTTTCTTTCTTTGATCAACTTAATAAGTTC 8 139 0 CAACCAATTTCGCTTTAGCAACCCACTCCTCATTACT 8 187 0 TTTTAGTTTTCTTTTTTGCAACCAATTTCGCTTTAGC 8 205 0 AAGTTTTCTCCGCTTTAATTAACAATTTTCTTTTATA 8 250 1 AAACGAACAAAGTTTGCTCAAGCAACTCATGCCCAAA 10 37 1 CGTAACATTACCCTAGAACCAACAAGGGAAACAATAA 10 77 1 TGTGTTAAACCACTTCGCTAACCAACTCCAAGTTCAT 10 249 1 TAACACCGCCGCTCATACTAACAATTGTAAGTTCCG 11 90 0 TAACTGCCCTCTTTTTATTGATCTACTGCAACAGTAA 14 10 0 TTACGAAAAACATTAACTCAATCAATTAACTTTAT 18 28 1 AAAGCGTAGTCATTTTGACCATCAAATTTCACCCTTA 22 55 1 ACGGCTTAACTAGCGCAAACAAGTCCCAATGCTT 23 7 1 GCTGTTAGTAAGTTTCTTTTAACAATTAAATGGGTCT 23 62 1 AGTAACCCCGCTTTTTGGCGATCTTATTGTGTCACTT 23 103 0 TAATTCCTTATCTTTTTCCAAACTAGTTTGCCGCTTG 23 192 0 TCGTTAATCTAACCATTTCACACTATGC 24 1 1 CTTTCCCTTTCCTTTAAACAAGCAATAATGTGATCTA 24 251 0 * *** * * *** * MAP Score: 11.5221 Motif 6 TAGTAAGTTTCTTTTAACAATTAAATGGGTCTTT 23 67 1 ACTAACAATGTTTTTAGCGACTAAAATGCTGTTT 21 50 1 AAATAACGAGTTTTTAACTTTAAAAAAGTTATCG 6 53 1 TTGTAGAATGTTTTGAACCACTAACAATGTTTTT 21 31 1 TTTGCTTGTGCTTTTTCCTTATAAAACTCATCAG 8 98 0 AGCGTAGTCATTTTGACCATCAAATTTCACCCTT 22 57 1 GGTTGGCTCTCTTTTACTTTATAACCACCAAAAA 7 59 1 TTAAATTCCTTTTTTTACGAAAAACATTAACTCA 18 14 1 TTTAGTTTTCTTTTTTGCAACCAATTTCGCTTTA 8 207 0 CTTGAGCAAACTTTGTTCGTTTAAGTTTTCGTCA 10 25 0 TATAATTGGCCTATTAACAAAGAAAGGGGATAAA 7 147 1 GCTTTTCTTTCTTTGATCAACTTAATAAGTTCAT 8 137 0 GCATGGTTAACTTTGATTATAAAACTTTCTTTAA 12 14 0 TTTAAGTTTTTATTTTTAAATTTTAAAAAT 14 137 0 AATTCCTTATCTTTTTCCAAACTAGTTTGCCGCT 23 194 0 AGTTATGTTATTATTAACCTGCAATAAACCAAAG 6 18 1 TTTCCCTTTCCTTTAAACAAGCAATAATGTGATC 24 253 0 AACTGCCCTCTTTTTATTGATCTACTGCAACAGT 14 12 0 ACTTTGATAGTTATTAGTAATTAATTAGTTAACA 2 15 1 ATAAAGACGGTTTTGAGTTACTTAA 7 1 0 AACCAGGTTCCTTTTTCTTTTTTATTAGTATTCG 21 203 1 ATCTTTGATCCTATTTATATAAAAGAAAATTGTT 8 270 0 AAACTGCTCTTTTTTTATGTCTTATTTGACCTGT 14 46 1 TTATATTTACTTATTAATTATTTATGAGGGGTTT 5 11 0 ****** * * ** MAP Score: 10.8829 Motif 7 TTTATAAGGAAAAAGCACAAGCAAAAATCAATGAACT 8 107 1 ATTGGTTGCAAAAAAGAAAACTAAAAATTAAATTAAG 8 216 1 CGAATACTAATAAAAAAGAAAAAGGAACCTGGTTCTC 21 200 0 TAACCTGCAATAAACCAAAGAAAATAACGAGTTTTTA 6 32 1 AAAAGGGCTAAAAATAACAGTAAAAAGCCACTAACAG 9 55 0 GATTTTGACGAAAACTTAAACGAACAAAGTTTGCTCA 10 20 1 TCAAAGAAAGAAAAGCTCAAGAATTAAGGAAAAGTAA 8 155 1 TAAATTAGAATAATAAGCAGTTTTGTT 4 0 1 ACCGTCTTTATAAATGAAAGAGAGCAGCACTTGGGGG 7 24 1 GTCTTATTTTTAAAATTTAAAAATAAAAACTTAAA 14 132 1 ATCAGCCCCCAAACTTATAATAAATAAACCAAAACAA 2 64 0 TAATTGCTTAAAATTAAGATAATAATTTTTTAAAT 15 8 1 CTAGTTTGGAAAAAGATAAGGAATTAGTCAGTTCAAT 23 203 1 CCCTAGTACTAAAATCAATAAGACTAAGGG 3 25 1 CTAGACCTTCAAACTATTAAAAACTAAGTACCACGCC 11 11 1 GGAAAAACTTTAAAGCACTGTTACAAAAACGCTTAAA 24 191 1 TTGTTAAAAGAAACTTACTAACAGCAAAAAAGCTCCA 23 50 0 TAGTGGTTCAAAACATTCTACAAAAAAACGATACTAG 21 17 0 **** * ** * ** MAP Score: 10.2188 Motif 8 TTATAACAAAATAAGAAATTAGCCCAGTCA 2 119 0 TCGTTAGCACTCAAGCCATTCGAGTGCTAA 7 112 1 AAAAAAGAAAACTAAAAATTAAATTAAGTT 8 225 1 CTCCGCTTTAATTAACAATTTTCTTTTATA 8 257 1 CAAAGTTTGCTCAAGCAACTCATGCCCAAA 10 44 1 TAGAGAAAGAACAATCAATTCGCAATTTTT 10 171 1 TGTTGATGTGTTAAACCACTTCGCTAACCA 10 243 1 TCTAGACCTTCAAACTATTAAAAACTAAG 11 9 1 CGCCGCTCATACTAACAATTGTAAGTTCCG 11 90 0 AAAGACGTCTATAAACCATTATTACAGGTC 14 73 0 TAAGCACTTTTTAAACCATTTTTTCAATTA 14 102 1 TATCTTAATTTTAAGCAATTA 15 1 0 GAAGACAAATTTAAAAAATTATTATCTTAA 15 23 0 AAACATTAACTCAATCAATTAACTTTAT 18 35 1 TGTTAGTGGTTCAAAACATTCTACAAAAAA 21 27 0 GTAAGTTTCTTTTAACAATTAAATGGGTCT 23 69 1 ATCATTGAAATTAAACAACTTCAAAAAAGT 23 140 0 TCGTTAATCTAACCATTTCACACTATG 24 7 1 CTTTCTGGTAACTAAACATTGGCGCCAACT 24 40 0 ********** MAP Score: 8.7087 Motif 9 ATTAGTTAACAGCCCACTTAAGGTGGTTGT 2 38 1 ATAAGAAATTAGCCCAGTCAAGGGGTGAAC 2 109 0 AGTAAAAGAGAGCCAACCCCCAAGTGCTGC 7 47 0 GTAAATCTTTAGCCCACTCGTTAGCACTCA 7 95 1 TCGCTTTAGCAACCCACTCCTCATTACTTT 8 185 0 TCTTTTTTGCAACCAATTTCGCTTTAGCAA 8 203 0 TGTGGTCAAAAGCCAACCCCATGTTGATGT 10 222 1 TTGATGTGTTAAACCACTTCGCTAACCAAC 10 245 1 CCACTTCGCTAACCAACTCCAAGTTCATAA 10 258 1 TAACTAGCGCAAACAAGTCCCAATGCTTTT 23 16 1 CATTGAAATTAAACAACTTCAAAAAAGTAG 23 138 0 ********** MAP Score: 7.10723 Motif 10 GCTTTTCTTTCTTTGATCAACTTAATAAGTTCATTGATTTT 8 130 0 TGAGGAGTGGGTTGCTAAAGCGAAATTGGTTGCAAAAAAGA 8 192 1 TTGGGCATGAGTTGCTTGAGCAAACTTTGTTCGTTTAAGTT 10 32 0 AACGTAGTTTCTTTGGCGAATTAGATCAGTTAGAGAAAGAA 10 141 1 TGTTAGATCAACGGTTTGCGGTTTATGAACTT 10 278 0 AGTTGGACTGGTTACATCAAATCTTTCAGGTAACCAGAATA 21 140 1 GGTGTATCCACTTCGACCAAAGCCTTAAGATTGTAGCAAAT 22 12 0 GGTGAAATTTGATGGTCAAAATGACTACGCTTTTCGGTGTA 22 47 0 CGGCAAACTAGTTTGGAAAAAGATAAGGAATTAGTCAGTTC 23 196 1 TTGGCGCCAACTTTGCATAGTGTGAAATGGTTAGATTAACG 24 11 0 CCAATGTTTAGTTACCAGAAAGTCTTTTGCTAAGCCGCTAC 24 48 1 TTAAAGCACTGTTACAAAAACGCTTAAAGGTAAGCTGTTCT 24 200 1 *** * ** * * * * MAP Score: 2.9282 Motif 11 GTGTTTGAATTACGTCTCTAATTTTACATAAGTTT 1 59 0 TTTATTATAAGTTTGGGGGCTGATTTTGTGGGGTTCA 2 77 1 CCCTTGACTGGGCTAATTTCTTATTTTGTTATAATTC 2 115 1 TAAATTAGAATAATAAGCAGTTTTGTTAAT 4 8 1 CACTCAAGCCATTCGAGTGCTAATTTTATATAATTGG 7 119 1 TAATTTAATTTTTAGTTTTCTTTTTTGCAACCAATTT 8 214 0 AAAGCCCATTAGCATGCGGCCCTTTTGTCGCTGTTAG 9 25 1 TTTTTACTGTTATTTTTAGCCCTTTTTTGTACACGA 9 66 1 AGAAAGAACAATCAATTCGCAATTTTTTTCACTTTAT 10 174 1 TTAAAAACTAAGTACCACGCCTTCTTTATCTTTTTGT 11 27 1 ATGCTTACACTTTTGTAAGCTCTTTTTTC 12 44 1 AAAAAGAGCAGTTTAACTGCCCTCTTTTTATTGATCT 14 23 0 AACTGCTCTTTTTTTATGTCTTATTTGACCTGTAATA 14 47 1 GTTTATAGACGTCTTTAAGCACTTTTTAAACCATTTT 14 87 1 TATCTTAAATTCCTTTTTTTACGAAAAAC 18 2 1 GTACTTACTAGTATCGTTTTTTTGTAGAATGT 21 5 1 CAATGCTTTTAGCTTGGAGCTTTTTTGCTGTTAGTAA 23 36 1 AAAGTCTTTTGCTAAGCCGCTACTTTTGCGTCTTGTA 24 66 1 AGAACAGCTTACCTTTAAGCGTTTTTGTAACAGTGCT 24 204 0 * ** ** ***** MAP Score: 1.86705 Motif 12 CTTTGTTTAATTATAATTGGGCGACT 0 10 0 GCCCCCAAACTTATAATAAATAAACCAAAACAAC 2 63 0 ATTTCTTATTTTGTTATAATTCAACAAGTATTAA 2 130 1 TATTATTAACCTGCAATAAACCAAAGAAAATAAC 6 26 1 CTCGATAACTTTTTTAAAGTTAAAAACTCGTTAT 6 55 0 GAAATTATTTTTGCAATAGCACAAACGATGATAA 6 91 0 TACTGATGAGTTTTATAAGGAAAAAGCACAAGCA 8 96 1 GAGGAGTGGGTTGCTAAAGCGAAATTGGTTGCAA 8 193 1 GCGAAATTGGTTGCAAAAAAGAAAACTAAAAATT 8 211 1 GACCTTCAAACTATTAAAAACTAAGTACCACGCC 11 14 1 TTAAAGAAAGTTTTATAATCAAAGTTAACCATGC 12 14 1 ATTAGTCTTATTTTTAAAATTTAAAAATAAAAAC 14 128 1 TAATTGCTTAAAATTAAGATAATAATT 15 3 1 CTTAAATTCCTTTTTTTACGAAAAACATTAACTC 18 13 1 TTTTTTGAAGTTGTTTAATTTCAATGATTATGGG 23 142 1 CTTTTGCGTCTTGTAAAATTAGAGCATCAACTAC 24 88 1 GTCGGGGGTATTATTTAAGTGTAGCTGCTTTAAA 24 149 1 ACATTATTGCTTGTTTAAAGGAAAGGGAAAGCG 24 257 1 ******** ** MAP Score: 0.36176