AlignACE 3.0 10/20/99 AlignACE2 -i CP/CP_operons016_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944237965 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 atpE 300 ATP Synthase Subunit E #1 CPn0087 48 CT309 hypothetical protein #2 atpK 94 ATP Synthase Subunit K #3 valS 133 Valyl tRNA Synthetase #4 ileS 300 Isoleucyl-tRNA Synthetase #5 rl31 80 L31 Ribosomal Protein #6 pfrA 238 Peptide Chain Releasing Factor #7 rl19 27 L19 Ribosomal Protein #8 rnhB_1 55 Ribonuclease HII #9 leuS 167 Leucyl tRNA Synthetase #10 CPn0681 54 CT691 hypothetical protein #11 murB 26 UDP-N-Acetylenolpyruvoylglucosamine Reductase #12 CPn0989 300 CT832 hypothetical protein Motif 1 CCCAATAGGGAATCTTTGGATCTAGAAGAAGGCCTA 0 4 1 GATCTAGAAGAAGGCCTACTTTCAAACAAACATAGAAAGGCA 0 28 1 ATAGAAAGGCAATTCTTCTTTTTTGAATTCTATGTTTATAGG 0 59 1 GTGGAATCATAATAACATCTTTTTTAAAGAAAATTCTTTTCT 0 245 1 TTATTATCTTTATGCTGCTTTTTCTAAAAATAGGGCATGTTT 3 28 0 CTTTTGCCTTTAGGAACATTTTGATATGAAAACATATTTACA 4 268 0 TTTCCTAGGTCACGATAATTTTGAAATAGATAACGTTAGATG 6 122 1 AAGAAAGAGAATTTTAGGTGGTATATT 7 3 1 ATATTGTCTTATTTTGATTTTTATAATCTATAGTAGCTT 8 26 1 TTGTCAATGTCATGGAAGTTTTTGAAGGAAAAACGGACAAGA 9 65 1 TACACTAAGCCTTTTTAATTTTTATATATATAAAAGTTTAGA 9 133 1 AAGAATAGCCTTTTTCGCAATAATAACTTGCCTAA 10 29 0 CATAATTATCCTTGTCGTCTTTAGAAATTAAAAATTTTTATA 12 71 1 GAAAGAGTTGCTGGAGATTTTTTATATAAAAATTTTTAATTT 12 95 0 GTTTTCGGAACTCACTTATTTTCTGATTCAGAGAAAGAGTTG 12 127 0 TTCCGAAAACAAAGTACATTTTTCAACTAAGAAGTTTTTGTT 12 159 1 TTTTTGTTGCAATTAAAACTTTCTAATAGATAACCTTGTTTC 12 193 1 CTCCTTAGCTAAGGACCTCTTTAGCAGTTAAATGTGTATTAT 12 245 1 ** * **** * * * MAP Score: 15.704 Motif 2 AAACATAGAATTCAAAAAAGAAGAATTGCCTTTCT 0 61 0 GGGATTTATCTTGAAGATATCAAAGCAATTTTCTT 0 132 1 TAATAACATCTTTTTTAAAGAAAATTCTTTTCTAA 0 254 1 AGAAAATTCTTTTCTAAAAGAATAAGCGGTAAAAT 0 272 1 TATCAAAATGTTCCTAAAGGCAAAAG 4 284 1 GCATCTAACGTTATCTATTTCAAAATTATCGTGAC 6 130 0 CTACTATAGATTATAAAAATCAAAATAAGACAATA 8 27 0 CTTGATTAACTAATTAAAAAAGGAACACAT 9 5 1 GTCATGGAAGTTTTTGAAGGAAAAACGGACAAGAC 9 73 1 TTCTAAACTTTTATATATATAAAAATTAAAAAGGC 9 141 0 TCTTAGGGTATTAGGAAAAGAAAAGCAACGGAAAT 12 28 1 CCTTGTCGTCTTTAGAAATTAAAAATTTTTATATA 12 80 1 TTGCTGGAGATTTTTTATATAAAAATTTTTAATTT 12 95 0 ACAAAGTACATTTTTCAACTAAGAAGTTTTTGTTG 12 167 1 ** ** ****** MAP Score: 13.2134 Motif 3 AGAAGGCCTACTTTCAAACAAACATAGAAAGGCA 0 36 1 TCTCCTCTAACTCTCTAAGAAAAAATTCCTATAA 0 94 0 ATAATAACATCTTTTTTAAAGAAAATTCTTTTCT 0 253 1 ACCGCTTATTCTTTTAGAAAAGAATTTTCTTTAA 0 268 0 CTTTAATAAAGTCATGAAAAGATC 1 0 1 TTTCATGTTCCTCTCTTAAAGGCAAGGGAAGTTT 2 11 0 CCTTCAAATACCTTTAAATAATTACGAACTTGAC 2 53 0 GTTTTGTTGGCTTTTTAGGAGGCCAGCCAACGCC 4 65 1 AGCTGGTTAGCTTTTATTCAATCATCGTATTTTG 4 163 1 CCTAAAAAACCTCTATTGTAAATATGTTTTCATA 4 252 1 AGAGAGAAAGCCCTCACAAAAAAACCCATTCTCG 6 61 0 CTAACGTTATCTATTTCAAAATTATCGTGACCTA 6 127 0 AAGAATAGCCTTTTTCGCAATAATAACTTGCCT 10 31 0 ACGGAAATCCCTTTCTCATAATTATCCTTGTCGT 12 55 1 TCCAGCAACTCTTTCTCTGAATCAGAAAATAAGT 12 122 1 GCAATTAAAACTTTCTAATAGATAACCTTGTTTC 12 201 1 AACCTTGTTTCTTTCTCACAACTCCTTAGCTAAG 12 224 1 AGCTAAGGACCTCTTTAGCAGTTAAATGTGTATT 12 251 1 ****** * ** * MAP Score: 13.1566 Motif 4 AAGAAAGAGAATTTTAGGTGGTATA 7 4 1 AAGATATTTCTGTAGAATCCT 5 0 1 ATCTTTTTTAAAGAAAATTCTTTTCTAAAAG 0 261 1 TTCCTAGGTCACGATAATTTTGAAATAGATA 6 123 1 AAAGAGTTGCTGGAGATTTTTTATATAAAAA 12 105 0 CTAAGTTTACAGGGTATTTCTTAGTAGAGAT 3 91 1 CAAGGTGTTTTAGAGAATTTTTTATCTGATT 6 179 1 CAAACATAGAAAGGCAATTCTTCTTTTTTGA 0 54 1 CCCAATAGGGAATCTTTGGATCTAGAA 0 6 1 TCTATGTTTATAGGAATTTTTTCTTAGAGAG 0 87 1 TTTTTCAACTAAGAAGTTTTTGTTGCAATTA 12 177 1 GACGACAACTTTAAATATTGAG 1 36 0 AAGAACTTCTTAGAGATCTCTAGAGAGGTGG 4 207 1 ATATTTACAATAGAGGTTTTTTAGGTTTTCG 4 246 0 GTCAATGTCATGGAAGTTTTTGAAGGAAAAA 9 67 1 TTAAATATTGAGAAGATCTTTTCATGACTTT 1 17 0 TGAAGATATCAAAGCAATTTTCTTCTAGAAC 0 143 1 ATTTTTTATATAAAAATTTTTAATTTCTAAA 12 90 0 ATACACCCCCACAACAATTTTAGAAGCTGGT 4 139 1 TACGAACTTGACAAGATTTCTTTCATGTTCC 2 34 0 ATTTTCTTCTAGAACATCTCTGCAACCCGTT 0 159 1 **** ****** MAP Score: 11.447 Motif 5 CTAGAAAGAAGAAGGCTATCTTAGGGTATTAG 12 8 1 TCTTGAAGATATCAAAGCAATTTTCTTCTAGAAC 0 140 1 AGAGAGGAACATGAAAGAAATCTTGTCAAGTTCG 2 29 1 CTCAAGCCCGAGAATGGGTTTTTTTGTGAGGGCT 6 53 1 TTGGATCTAGAAGAAGGCCTACTTTCAAACAAAC 0 25 1 GTATCAGTATACCAAGGTGTTTTAGAGAATTTTT 6 167 1 TTAATTTAGACCAAGGGATTCTAAAA 11 9 1 GTGAGAAAGAAACAAGGTTATCTATTAGAAAGTT 12 209 0 AAACAAACATAGAAAGGCAATTCTTCTTTTTTGA 0 51 1 TATTATTGCGAAAAAGGCTATTCTT 10 39 1 TTGGCATAATAGGATAGCGATTTTGGAGTTGTCA 5 54 1 GAGTTCCGAAAACAAAGTACATTTTTCAACTAAG 12 156 1 AAGAAAGAGAATTTTAGGTGGTAT 7 0 1 AAACATATTTACAATAGAGGTTTTTTAGGTTTTC 4 247 0 GTTAGAGGAGAGCATGGGATTTATCTTGAAGATA 0 117 1 AATTTTCTTTAAAAAAGATGTTATTATGATTCCA 0 246 0 TGAGAGCCTGAGAATGGGTTTTATAAATGGGAAA 6 23 0 TAACTAATTAAAAAAGGAACACATATAGAGTAGG 9 16 1 TTTTAATTGCAACAAAAACTTCTTAGTTGAAAAA 12 177 0 ATCTTTTTTAAAGAAAATTCTTTTCTAAAAGAAT 0 261 1 ACATTTTGATATGAAAACATATTTACAATAGAGG 4 261 0 AATTCCTATAAACATAGAATTCAAAAAAGAAGAA 0 71 0 ATGTTTTCATATCAAAATGTTCCTAAAGGCAAAA 4 275 1 CTAACTCTCTAAGAAAAAATTCCTATAAACATAG 0 88 0 * ***** **** MAP Score: 11.2642 Motif 6 CAATTCTTCTTTTTTGAATTCTATGTTTATAGGAATTTTT 0 68 1 TTGCTGGAGATTTTTTATATAAAAATTTTTAATTTCTAAA 12 90 0 GACTTCATATTGTCTTATTTTGATTTTTATAATCTATAGT 8 20 1 ACACTAAGCCTTTTTAATTTTTATATATATAAAAGTTTAG 9 134 1 TAATAACATCTTTTTTAAAGAAAATTCTTTTCTAAAAGAA 0 254 1 ATAGGGCATGTTTATGATTTGATATTTTTTA 3 1 0 AATATTTTACCGCTTATTCTTTTAGAAAAGAA 0 278 0 AATGGGTTTTTTTGTGAGGGCTTTCTCTCTTGCAATAGCT 6 65 1 TATACCAAGGTGTTTTAGAGAATTTTTTATCTGATTCCAT 6 174 1 AAGAAGTTTTTGTTGCAATTAAAACTTTCTAATAGATAAC 12 187 1 TAAGGACCTCTTTAGCAGTTAAATGTGTATTATTAACTAT 12 254 1 AATATACCACCTAAAATTCTCTTTCTT 7 5 0 GAGAATGGGTTTTATAAATGGGAAATCTAAAAGAAGTT 6 8 0 * * * * * ** * * * MAP Score: 8.73035 Motif 7 TAGAAAAGAATTTTCTTTAAAAAAGATGTTATTATGATTCCA 0 246 0 GAAAGAAATCTTGTCAAGTTCGTAATTATTTAAAGGTATTTG 2 41 1 TAACACTTCATTTTCAAGTCGAAACCTATACACCCCCACAAC 4 112 1 TGTAAATATGTTTTCATATCAAAATGTTCCTAAAGGCAAAAG 4 268 1 AACTTCTTTTAGATTTCCCATTTATAAAACCCATTCTC 6 6 1 GCATCTAACGTTATCTATTTCAAAATTATCGTGACCTAGGAA 6 123 0 AGACTTCATATTGTCTTATTTTGATTTTTATAATCTATAGTA 8 19 1 GACTCTTGTTTTTTCCTCTGGGGAGACGTACACTAAGCCTTT 9 105 1 CACTAAGCCTTTTTAATTTTTATATATATAAAAGTTTAGAAT 9 135 1 TTTCCGTTGCTTTTCTTTTCCTAATACCCTAAGATAGCCTTC 12 20 0 ATAATTATCCTTGTCGTCTTTAGAAATTAAAAATTTTTATAT 12 72 1 CAAAGTACATTTTTCAACTAAGAAGTTTTTGTTGCAATTAAA 12 168 1 AGAAACAAGGTTATCTATTAGAAAGTTTTAATTGCAACAAAA 12 194 0 ** ** * * * * * * MAP Score: 8.47288 Motif 8 GGTGTTTTAGAGAATTTTTTATCTGATTCCATTTGA 6 182 1 TATGTTTATAGGAATTTTTTCTTAGAGAGTTAGAGG 0 89 1 TAAATATTGAGAAGATCTTTTCATGACTTTATTAAA 1 11 0 AAAATCTCCAGCAACTCTTTCTCTGAATCAGAAAAT 12 116 1 AATCATAATAACATCTTTTTTAAAGAAAATTCTTTT 0 249 1 AATTGCAACAAAAACTTCTTAGTTGAAAAATGTACT 12 171 0 AGATATCAAAGCAATTTTCTTCTAGAACATCTCTGC 0 146 1 TTGCCTTTAGGAACATTTTGATATGAAAACATATTT 4 271 0 TGTTGCAATTAAAACTTTCTAATAGATAACCTTGTT 12 197 1 TCAATGTCATGGAAGTTTTTGAAGGAAAAACGGACA 9 68 1 ATAGAAAGGCAATTCTTCTTTTTTGAATTCTATGTT 0 59 1 TTTAGAAATTAAAAATTTTTATATAAAAAATCTCCA 12 90 1 AAGTTTACAGGGTATTTCTTAGTAGAGATCACAAAT 3 93 1 AAGCCCGAGAATGGGTTTTTTTGTGAGGGCTTTCTC 6 56 1 TTTAAAGAAAATTCTTTTCTAAAAGAATAAGCGGTA 0 267 1 GTGGGGGTGTATAGGTTTCGACTTGAAAATGAAGTG 4 115 0 TTATCTTTATGCTGCTTTTTCTAAAAATAGGGCATG 3 31 0 GATTTCCGTTGCTTTTCTTTTCCTAATACCCTAAGA 12 28 0 TAACTGCTAAAGAGGTCCTTAGCTAAGGAGTTGTGA 12 239 0 AAGATATTTCTGTAGAATCCTCTCGAA 5 1 1 * * ***** *** MAP Score: 8.33841 Motif 9 CCAATAGGGAATCTTTGGATCTAGAAGAAGGC 0 11 1 GCAATTCTTCTTTTTTGAATTCTATGTTTATA 0 67 1 GAATTCTATGTTTATAGGAATTTTTTCTTAGA 0 83 1 TAGGAATTTTTTCTTAGAGAGTTAGAGGAGAG 0 97 1 ACATGCCCTATTTTTAGAAAAAGCAGCATAAA 3 30 1 TTTTGTTGGCTTTTTAGGAGGCCAGCCAACGC 4 66 1 CCCCACAACAATTTTAGAAGCTGGTTAGCTTT 4 145 1 CTCTAAGAAGTTCTTAGAACTTGACCAAAATA 4 190 0 TTCTAAGAACTTCTTAGAGATCTCTAGAGAGG 4 203 1 CAATAGAGGTTTTTTAGGTTTTCGTCCATAGC 4 238 0 ATACCAAGGTGTTTTAGAGAATTTTTTATCTG 6 175 1 TTTTCACCACTTTTTAGGGATTC 6 225 1 AAGAAAGAGAATTTTAGGTGGTATATT 7 10 1 GAAGAAGGCTATCTTAGGGTATTAGGAAAAGA 12 17 1 TTATTAACTATTTTTTGGTTGCTTGTC 12 283 1 ********* * MAP Score: 5.38763 Motif 10 AATTCTATGTTTATAGGAATTTTTTCTTAGAGAGT 0 84 1 ATTAGTGGAATCATAATAACATCTTTTTTAAAGAA 0 241 1 AACATCTTTTTTAAAGAAAATTCTTTTCTAAAAGA 0 258 1 TTTAATAAAGTCATGAAAAGATCTTCTCAATATTT 1 11 1 AAGTTCGTAATTATTTAAAGGTATTTGAAGGGAGC 2 56 1 ACCTAAGGCTGAATGCGAAATTATTAGCTTGTTTG 4 18 0 TTTGGTCAAGTTCTAAGAACTTCTTAGAGATCTCT 4 193 1 AAATATGTTTTCATATCAAAATGTTCCTAAAGGCA 4 271 1 GCCTGTATCAGTATACCAAGGTGTTTTAGAGAATT 6 163 1 TGGAGATTTTTTATATAAAAATTTTTAATTTCTAA 12 91 0 ***** ** * ** MAP Score: 2.95704 Motif 11 CTCTCCTCTAACTCTCTAAGAAAAAATTCCTATAAACATAGAAT 0 85 0 ATTGCTTTGATATCTTCAAGATAAATCCCATGCTCTCCTCTAAC 0 117 0 TAATAACATCTTTTTTAAAGAAAATTCTTTTCTAAAAGAATAAG 0 254 1 AAACATGCCCTATTTTTAGAAAAAGCAGCATAAAGATAATAAAA 3 28 1 TTTAGGAACATTTTGATATGAAAACATATTTACAATAGAGGTTT 4 258 0 TACTATAGATTATAAAAATCAAAATAAGACAATATGAAGTCTTG 8 17 0 CTTGATTAACTAATTAAAAAAGGAACACATATAGAGTAG 9 5 1 GTCATGGAAGTTTTTGAAGGAAAAACGGACAAGACTCTTGTTTT 9 73 1 GAATAGCCTTTTTCGCAATAATAACTTGCCTAAACGATCTTGTA 10 18 0 TCTTAGGGTATTAGGAAAAGAAAAGCAACGGAAATCCCTTTCTC 12 28 1 AAATTAAAAATTTTTATATAAAAAATCTCCAGCAACTCTTTCTC 12 95 1 AAGAAGTTTTTGTTGCAATTAAAACTTTCTAATAGATAACCTTG 12 187 1 * * * **** * * * MAP Score: 2.05085 Motif 12 GAATTTTTTCTTAGAGAGTTAGAGGAGAGCATGGGA 0 100 1 AGAAAATTGCTTTGATATCTTCAAGATAAATCCCAT 0 130 0 GACGACAACTTTAAATATTGAGAAGATCTTTTCA 1 24 0 CTTCAAATACCTTTAAATAATTACGAACTTGACAAG 2 50 0 AAGTCGAAACCTATACACCCCCACAACAATTTTAGA 4 127 1 GCCCACCTCTCTAGAGATCTCTAAGAAGTTCTTAGA 4 204 0 ATTGACAACTCCAAAATCGCTATCCT 5 64 0 CATTCTCGGGCTTGAGAGCCTGAGAATGGGTTTTAT 6 33 0 TAATTTTGAAATAGATAACGTTAGATGCCTGTATCA 6 137 1 AAGCTACTATAGATTATAAAAATCAAAATAAG 8 33 0 CTTCCATGACATTGACAAAAACAGGAGCGCCCCCCT 9 47 0 ACTTTTATATATATAAAAATTAAAAAGGCTTAGTGT 9 134 0 ATTTTTATATATATAAAAGTTTAGAAT 9 150 1 CTAGAAAGAAGAAGGCTATCTTAGGG 12 0 1 TTTTTAATTTCTAAAGACGACAAGGATAATTATGAG 12 69 0 ***** * **** MAP Score: 0.589165 Motif 13 AATTCTTCTTTTTTGAATTCTATGTTTATAGGAA 0 69 1 ATGCCCTATTTTTAGAAAAAGCAGCATAAAGATA 3 32 1 AGATCACAAATTTGGATTAAGAATT 3 118 1 GGTGTATAGGTTTCGACTTGAAAATGAAGTGTTA 4 112 0 TTTAGGAACATTTTGATATGAAAACATATTTACA 4 268 0 AACTTCTTTTAGATTTCCCATTTATAAAACC 6 7 1 GTCACGATAATTTTGAAATAGATAACGTTAGATG 6 130 1 TATTGTCTTATTTTGATTTTTATAATCTATAGTA 8 27 1 GCCTTTTTAATTTTTATATATATAAAAGTTTAGA 9 141 1 CCTTGTCGTCTTTAGAAATTAAAAATTTTTATAT 12 80 1 AAATTAAAAATTTTTATATAAAAAATCTCCAGCA 12 95 1 *** ** ** *** MAP Score: 0.14774