AlignACE 3.0 10/20/99 AlignACE2 -i MP/MP_operons001_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944246673 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 ATAAATAGGATCAAAGATAAAAAA 8 286 1 ATTAAGTTGATCAAAGAAAGAAAAGCTCAAGAAT 8 145 1 GGTTATAAAGTAAAAGAGAGCCAACCCCCAAGTG 7 51 0 ATACGGAAACAAAAAGATAAAGAAGGCGTGGTAC 11 38 0 ACTAGTTTGGAAAAAGATAAGGAATTAGTCAGTT 23 202 1 ATTGGTTGCAAAAAAGAAAACTAAAAATTAAATT 8 216 1 TTGATCACGATAAAAGAGAATAACTGCAAGCTGT 8 53 1 AATACTAATAAAAAAGAAAAAGGAACCTGGTTCT 21 201 0 TGGCCTATTAACAAAGAAAGGGGATAAAATAG 7 153 1 TCTTTATAAATGAAAGAGAGCAGCACTTGGGGGT 7 28 1 AGCTCAAGAATTAAGGAAAAGTAATGAGGAGTGG 8 168 1 CATATCTACCATAAAGTGAAAAAAATTGCGAATT 10 187 0 ATTTAATTGTTAAAAGAAACTTACTAACAGCAAA 23 59 0 GATAACTTTTTTAAAGTTAAAAACTCGTTATTTT 6 52 0 ATTGCTTGTTTAAAGGAAAGGGAAAGCG 24 262 1 CTGCAATAAACCAAAGAAAATAACGAGTTTTTAA 6 36 1 ATAAAGTTAATTGATTGAGTTAAT 18 39 0 AATGGGTCTTTTAAAGTGACACAATAAGATCGCC 23 90 1 CCTATTTATATAAAAGAAAATTGTTAATTAAAGC 8 261 0 AGTTTTATAATCAAAGTTAACCATGCTTACACTT 12 22 1 * ***** ** ** MAP Score: 18.119 Motif 2 AAATCCTTTTTTTAGTTGATT 16 1 0 AAGATAATAATTTTTTAAATTTGTCTTCG 15 25 1 AATTCGCAATTTTTTTCACTTTATGGTAGATATG 10 187 1 ACTGGGCTAATTTCTTATTTTGTTATAATTCAAC 2 121 1 TTCTTGAGCTTTTCTTTCTTTGATCAACTTAATA 8 144 0 GTACCACGCCTTCTTTATCTTTTTGTTTCCGTAT 11 38 1 AACTCGTTATTTTCTTTGGTTTATTGCAGGTTAA 6 31 0 TTTAACTGCCCTCTTTTTATTGATCTACTGCAAC 14 15 0 AACTGACTAATTCCTTATCTTTTTCCAAACTAGT 23 202 0 GGGTTACTACTTTTTTGAAGTTGTTTAATTTCAA 23 132 1 GGGGTTGGCTCTCTTTTACTTTATAACCACCAAA 7 57 1 AGAACCAGGTTCCTTTTTCTTTTTTATTAGTATT 21 201 1 GGAACTGTTATTGTTTCCCTTGTTGGTTCTAGGG 10 87 0 CAAGTGCTGCTCTCTTTCATTTATAAAGACGGTT 7 23 0 CTTAAGGTGGTTGTTTTGGTTTATTTATTATAAG 2 54 1 GCAGTTATTCTCTTTTATCGTGATCAAAGGTGGT 8 46 0 CTGTTAGTGGCTTTTTACTGTTATTTTTAGCCCT 9 55 1 CTATTTTATCCCCTTTCTTTGTTAATAGGCCAA 7 152 0 TAAAGATTTACCTTTTTTGGTGGTTATAAAGTAA 7 72 0 TTTTAAACCATTTTTTCAATTAGTCTTATTTTTA 14 110 1 ACTTAATTTAATTTTTAGTTTTCTTTTTTGCAAC 8 220 0 ****** *** * MAP Score: 16.1133 Motif 3 CAAGTGCTGCTCTCTTTCATTTATAAAGAC 7 27 0 TTGGGGGTTGGCTCTCTTTTACTTTATAAC 7 54 1 GCTAAAGATTTACCTTTTTTGGTGGTTATA 7 78 0 TTGCAGTTATTCTCTTTTATCGTGATCAAA 8 52 0 TTCTTGAGCTTTTCTTTCTTTGATCAACTT 8 148 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 CAGGTTCCTTTTTCTTTTTTATTAGTATTC 21 206 1 ********** MAP Score: 14.9914 Motif 4 TTTAAGTTTTTATTTTTAAATTTTAAA 14 140 0 TATCTTAAATTCCTTTTTTTACGAAAAACA 18 4 1 AGTTAATTGATTGAGTTAATGTTTTTCGTAAAAAAA 18 23 0 TAATTTAATTTTTAGTTTTCTTTTTTGCAACCAATT 8 215 0 GAGAACCAGGTTCCTTTTTCTTTTTTATTAGTATTC 21 200 1 AAACCATTTTTTCAATTAGTCTTATTTTTAAAATTT 14 114 1 GTTAGTGGCTTTTTACTGTTATTTTTAGCCCTTTTT 9 57 1 AAGAGGGCAGTTAAACTGCTCTTTTTTTATGTCTTA 14 34 1 ATTGTGGGAGCTAGTTTAGCGTTATTACCACACCAA 20 27 1 CTTGACTGGGCTAATTTCTTATTTTGTTATAATTCA 2 117 1 TTCATTGATTTTTGCTTGTGCTTTTTCCTTATAAAA 8 106 0 AGTACCACGCCTTCTTTATCTTTTTGTTTCCGTATT 11 37 1 CTTAAGGTGGTTGTTTTGGTTTATTTATTATAAGTT 2 54 1 CAATTCGCAATTTTTTTCACTTTATGGTAGATATGG 10 186 1 AAACTCGTTATTTTCTTTGGTTTATTGCAGGTTAAT 6 30 0 AGCAGTTTAACTGCCCTCTTTTTATTGATCTACTGC 14 18 0 CCACTCCTCATTACTTTTCCTTAATTCTTGAGCTTT 8 166 0 CATTCGAGTGCTAATTTTATATAATTGGCCTATTAA 7 128 1 ** ** * ***** MAP Score: 12.1849 Motif 5 AATAAGAAATTAGCCCAGTCAAGGGGTGAACC 2 108 0 TAACCTGCAATAAACCAAAGAAAATAACGAGT 6 32 1 ATTTTTGCAATAGCACAAACGATGATAATCCT 6 87 0 TATAAGGAAAAAGCACAAGCAAAAATCAATGA 8 109 1 ACTTATTAAGTTGATCAAAGAAAGAAAAGCTC 8 141 1 CGAACAAAGTTTGCTCAAGCAACTCATGCCCA 10 40 1 AACATTACCCTAGAACCAACAAGGGAAACAAT 10 80 1 CAGTTAGAGAAAGAACAATCAATTCGCAATTT 10 167 1 ACTGTTGCAGTAGATCAATAAAAAGAGGGCAG 14 12 1 CGAAAAACATTAACTCAATCAATTAACTTTAT 18 31 1 AACGCTAAACTAGCTCCCACAATTTGCTAGAA 20 18 0 ACGGCTTAACTAGCGCAAACAAGTCCCAATGC 23 10 1 CGGGTGGATTTAGCGCAAACACTACCAGGTCG 24 121 1 TCCCTTTCCTTTAAACAAGCAATAATGTGATC 24 253 0 **** *** *** MAP Score: 10.0445 Motif 6 GTTAACAGCCCACTTAAGGTGGTTGTTTTGGTTTATTTATTATAAGT 2 42 1 TATTTATTATAAGTTTGGGGGCTGATTTTGTGGGGTTCACCCCTTGA 2 75 1 TGGGGTTCACCCCTTGACTGGGCTAATTTCTTATTTTGTTATAATTC 2 105 1 TGCTCTCTTTCATTTATAAAGACGGTTTTGAGTTACTTAA 7 3 0 AGCACTCAAGCCATTCGAGTGCTAATTTTATATAATTGGCCTATTAA 7 117 1 CATTACTTTTCCTTAATTCTTGAGCTTTTCTTTCTTTGATCAACTTA 8 147 0 GCCCTTTTGTCGCTGTTAGTGGCTTTTTACTGTTATTTTTAGCCCTT 9 43 1 TTTGGGCATGAGTTGCTTGAGCAAACTTTGTTCGTTTAAGTTTTCGT 10 27 0 AGAGAAAGAACAATCAATTCGCAATTTTTTTCACTTTATGGTAGATA 10 172 1 AAAAAGAGGGCAGTTAAACTGCTCTTTTTTTATGTCTTATTTGACCT 14 31 1 TGGTTTATAGACGTCTTTAAGCACTTTTTAAACCATTTTTTCAATTA 14 85 1 ATTTCTAGCAAATTGTGGGAGCTAGTTTAGCGTTATTACCACACCAA 20 16 1 GCTGAGGGACCTGAGAACCAGGTTCCTTTTTCTTTTTTATTAGTATT 21 188 1 AGTCCCAATGCTTTTAGCTTGGAGCTTTTTTGCTGTTAGTAAGTTTC 23 31 1 * * ** **** ** MAP Score: 9.10996 Motif 7 ACTTATAATAAATAAACCAAAACAACCACCTTAAG 2 54 0 CAAAATAAGAAATTAGCCCAGTCAAGGGGTGAACC 2 108 0 ATAAATAATTAATAAGTAAATATAAAA 5 20 1 ATTAACCTGCAATAAACCAAAGAAAATAACGAGTT 6 30 1 TTTTATAAGGAAAAAGCACAAGCAAAAATCAATGA 8 106 1 TGATCAACTTAATAAGTTCATTGATTTTTGCTTGT 8 123 0 AAGCTCAAGAATTAAGGAAAAGTAATGAGGAGTGG 8 167 1 AATTGGTTGCAAAAAAGAAAACTAAAAATTAAATT 8 215 1 TCGTGTACAAAAAAGGGCTAAAAATAACAGTAAA 9 68 0 CCCTAGAACCAACAAGGGAAACAATAACAGTTCCC 10 87 1 TTCTTTGGCGAATTAGATCAGTTAGAGAAAGAACA 10 149 1 CATATCTACCATAAAGTGAAAAAAATTGCGAATTG 10 186 0 ATACGGAAACAAAAAGATAAAGAAGGCGTGGTACT 11 37 0 GAAAAAAGAGCTTACAAAAGTGTAAGC 12 46 0 AGATCAATAAAAAGAGGGCAGTTAAACTGCTCTTT 14 23 1 TTACAGGTCAAATAAGACATAAAAAAAGAGCAGTT 14 47 0 AAAATGGTTTAAAAAGTGCTTAAAGACGTCTATAA 14 89 0 AATCAACTAAAAAAAGGATTT 16 0 1 TTTTTCGTAAAAAAAGGAATTTAAGATA 18 3 0 GATTTGATGTAACCAGTCCAACTAAAAGTGCAGAT 21 128 0 AATACTAATAAAAAAGAAAAAGGAACCTGGTTCTC 21 200 0 AAAGTGACACAATAAGATCGCCAAAAAGCGGGGTT 23 102 1 ATGGGAAAATAATAAGGCCTGCAAGCGGCAAACTA 23 171 1 ****** ** ** MAP Score: 7.80509 Motif 8 TAAAGTAAAAGAGAGCCAACCCCCAAGTGCT 7 49 0 CGAATGGCTTGAGTGCTAACGAGTGGGCTAA 7 103 0 TTAACAAAGAAAGGGGATAAAATAG 7 160 1 GTGTACAAAAAAGGGCTAAAAATAACAGTAA 9 69 0 CAAGTTCATAAACCGCAAACCGTTGATCTAA 10 277 1 GAAAAAAGAGCTTACAAAAGTGTAAG 12 47 0 ATGGTTTAAAAAGTGCTTAAAGACGTCTATA 14 90 0 GTTTGACTCCGAGTGGAAACCGATTATAAAT 21 80 1 CTTTTAGTTGGACTGGTTACATCAAATCTTT 21 135 1 GCTTTGGTCGAAGTGGATACACCGAAAAGCG 22 30 1 ACGGCTTAACTAGCGCAAACAAGTCCCAATG 23 10 1 GAAACTTACTAACAGCAAAAAAGCTCCAAGC 23 47 0 TAAGGCCTGCAAGCGGCAAACTAGTTTGGAA 23 183 1 GTTCAATTGTGACTGCTAAAAGC 23 233 1 CGGGTGGATTTAGCGCAAACACTACCAGGTC 24 121 1 TTTAAAACTGGAGCGGAAAAACTTTAAAGCA 24 177 1 TCTGCGTCAGAACAGCTTACCTTTAAGCGTT 24 218 0 *** ******* MAP Score: 7.14699 Motif 9 TATAACCACCAAAAAAGGTAAATCTTTAGCCCA 7 78 1 ATTAACAAAGAAAGGGGATAAAATAG 7 159 1 AAAGACGCTTTATTAGAGTTGGA 8 0 1 TATCGTGATCAAAGGTGGTATATCATTCTGAGT 8 32 0 TAACAGCGACAAAAGGGCCGCATGCTAATGGGC 9 28 0 TCGTGTACAAAAAAGGGCTAAAAATAACAGTAA 9 69 0 GAAAAAAGAGCTTACAAAAGTGTAAG 12 47 0 TTTGACCTGTAATAATGGTTTATAGACGTCTTT 14 70 1 AAATGGTTTAAAAAGTGCTTAAAGACGTCTATA 14 90 0 GACTAATTGAAAAAATGGTTTAAAAAGTGCTTA 14 102 0 GGCTACAGGGAAACGCGATTTATAATCGGTTTC 21 95 0 TACTAACAGCAAAAAAGCTCCAAGCTAAAAGCA 23 39 0 GCGTTTTTGTAACAGTGCTTTAAAGTTTTTCCG 24 190 0 GCACTGTTACAAAAACGCTTAAAGGTAAGCTGT 24 205 1 ***** *** ** MAP Score: 5.95974 Motif 10 ATTAATTACTAATAACTATCAAAGTCATCT 2 5 0 ATAACGAGTTTTTAACTTTAAAAAAGTTATCGAGG 6 55 1 TCTTTTACTTTATAACCACCAAAAAAGGTAAATCT 7 68 1 TAATTGGCCTATTAACAAAGAAAGGGGATAAAATA 7 149 1 TATTAAGTTGATCAAAGAAAGAAAAGCTCAAGAAT 8 144 1 TATAAATAGGATCAAAGATAAAAAA 8 285 1 AAAAGCCACTAACAGCGACAAAAGGGCCGCATGCT 9 35 0 AAGGGCTAAAAATAACAGTAAAAAGCCACTAACAG 9 55 0 TGACGAAAACTTAAACGAACAAAGTTTGCTCAAGC 10 25 1 TCTAGACCTTCAAACTATTAAAAACTAAGTACCA 11 9 1 TAATACGGAAACAAAAAGATAAAGAAGGCGTGGTA 11 39 0 GAAAAAAGAGCTTACAAAAGTGTAAGCATG 12 43 0 TTACAGGTCAAATAAGACATAAAAAAAGAGCAGTT 14 47 0 AGTTTTTATTTTTAAATTTTAAAAATAAGACTAAT 14 128 0 AATCAACTAAAAAAAGGATTT 16 1 1 TTCGAATACTAATAAAAAAGAAAAAGGAACCTGGT 21 204 0 AAAGAAACTTACTAACAGCAAAAAAGCTCCAAGCT 23 46 0 ATTGAAATTAAACAACTTCAAAAAAGTAGTAACCC 23 132 0 GCTCTAATTTTACAAGACGCAAAAGTAGCGGCTTA 24 78 0 GCACTGTTACAAAAACGCTTAAAGGTAAGCTGTTC 24 205 1 ** *** ***** MAP Score: 3.28928 Motif 11 AGATCAATAAAAAGAGGGCAGTTAAACTGCTCTTTTTTTATG 14 23 1 CTGTTACAAAAACGCTTAAAGGTAAGCTGTTCTGACGCAGAG 24 208 1 AGTTTGGAAAAAGATAAGGAATTAGTCAGTTCAATTGTGACT 23 205 1 TTGATGTGTTAAACCACTTCGCTAACCAACTCCAAGTTCATA 10 245 1 ACCACCAAAAAAGGTAAATCTTTAGCCCACTCGTTAGCACTC 7 82 1 GGCTACAGGGAAACGCGATTTATAATCGGTTTCCACTCGGAG 21 86 0 TAAATTAGAATAATAAGCAGTTTTGTTAAT 4 1 1 TGGTTACCTGAAAGATTTGATGTAACCAGTCCAACTAAAAGT 21 134 0 TAGTTACCAGAAAGTCTTTTGCTAAGCCGCTACTTTTGCGTC 24 56 1 ATTTTCCCATAATCATTGAAATTAAACAACTTCAAAAAAGTA 23 139 0 GAATTATAACAAAATAAGAAATTAGCCCAGTCAAGGGGTGAA 2 110 0 TTTGACCTGTAATAATGGTTTATAGACGTCTTTAAGCACTTT 14 70 1 ** *** * **** MAP Score: 3.06556 Motif 12 TAAAAGAGAGCCAACCCCCAAGTGCTGCTCTC 7 43 0 GCTTTAGCAACCCACTCCTCATTACTTTTCCT 8 181 0 AGCAAACTTTACAAAGCCCATTAGCATGCGGC 9 13 1 TTGGCTTTTGACCACACCATATCTACCATAAA 10 206 0 TGGTCAAAAGCCAACCCCATGTTGATGTGTTA 10 224 1 ACTTCGCTAACCAACTCCAAGTTCATAAACCG 10 260 1 AAAACTAAGTACCACGCCTTCTTTATCTTTTT 11 30 1 TAGCGTTATTACCACACCAATT 20 43 1 ATTTGATGTAACCAGTCCAACTAAAAGTGCAG 21 130 0 ACTAGCGCAAACAAGTCCCAATGCTTTTAGCT 23 18 1 ***** **** * MAP Score: 2.98925 Motif 13 CCAATTTCGCTTTAGCAACCCACTCCTCATTACTTT 8 185 0 TAGTTTTCTTTTTTGCAACCAATTTCGCTTTAGCAA 8 203 0 TGTAGCAAACTTTACAAAGCCCATTA 9 0 1 CAAAGTTTGCTCAAGCAACTCATGCCCAAAACCCGT 10 44 1 GTTAAACCACTTCGCTAACCAACTCCAAGTTCATAA 10 252 1 CTGAAAGATTTGATGTAACCAGTCCAACTAAAAGTG 21 133 0 ATCAAATCTTTCAGGTAACCAGAATATTAGCATGCT 21 155 1 ACGGCTTAACTAGCGCAAACAAGTCCCAATGCTTTT 23 10 1 TCGTTAATCTAACCATTTCACACTATGCAA 24 4 1 CGGGTGGATTTAGCGCAAACACTACCAGGTCGGGGG 24 121 1 * ******* ** MAP Score: 1.30388