AlignACE 3.0 10/20/99 AlignACE2 -i CT/CT_operons008_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944242151 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 clpB 300 Clp Protease ATPase #1 clpC 264 ClpC Protease ATPase #2 lon 300 Lon ATP-dependent protease #3 glyA 300 Serine Hydroxymethyltransferase #4 hisS 300 Histidyl tRNA Synthetase #5 clpP_2 166 CLP Protease #6 tig 300 Trigger Factor-peptidyl prolyl isomerase #7 alaS 300 Alanyl tRNA Synthetase #8 CT779_CT780 155 CT779: hypothetical protein, CT780: Thioredoxin Disulfide Isomerase #9 lysS 231 Lysyl tRNA Synthetase Motif 1 AACAAAATTTTCCTCTCTTTTTTTCTTTTT 7 187 1 AATTTTCTCTCTTTGTTTAATTGT 8 4 1 AAGCTGCATATCCTCTCTCTTCAAAATTTC 9 116 1 ACGCGCGTAATTCTCTTTTTTAATAAGAGA 9 12 1 TTAAAATAAATCCTCTTTCTCCTAGAAAGT 3 168 1 CCGGAACAATGTCTCTCTTTACAACCTGTG 8 119 1 CTGGGTCGTTTTCTCTTTCTTGGAAATCCG 9 60 0 CGACCCAGTTTTCTCTTTCTATTTTGGAGA 9 82 1 CACCCCTACTCCCTCTCTTTACACAGCAAA 4 77 0 ATCCTACCCTTCCTCTCTTCGATTTTTTTG 7 224 1 TGATCGAAACTACTCTCTTTGATCAAGAAA 0 101 0 CTTTTTAAAGTTCTTTTTTTGCGCAAAGAA 4 234 0 AGTCCAATTTTTCTTTTTTTACCACCTCTT 6 76 1 CTCTCTTTTTTTCTTTTTTTTGCTCATCCT 7 199 1 TTTGTCGAAATTCTTTTTTTTAGCGCTCCA 7 250 1 GGAGAAGTTGTTCTCTGTCTGTTTATTTAG 1 35 0 CCTCTCTTCTTCCTCTATTTTTCCCCTTTT 6 33 1 ATTAGATGGGGTCTTTCTTTTCTAGGGTCA 5 89 1 CCTGCTCCTTTTCTCTCTATTATTTCTTTT 4 157 0 GAAGCATCGTTTCTTTTTCTTATAGTTATA 3 137 1 CCTCTATTTTTCCCCTTTTTAAAGCTGTTT 6 44 1 GAACACGTTTTTCTCTTATTAAAAAAGAGA 9 23 0 CTCATCACCCGCTTCTCTTTCCCGGATAAC 6 263 1 AAAATTTTGACCCTCTCTTCTTCCTCTATT 6 22 1 TCGTCAATACTCCTTTCATTTAGCTTAATA 4 28 1 ACGGTTATAATCCTTTGTCTAAATCAATCT 2 14 0 CCCCAAAAAACCCTTTTTCTTAACCTCTCA 7 118 1 TCTCTATTATTTCTTTTATTTGACACACCT 4 144 0 ********** MAP Score: 38.0544 Motif 2 ATCTCTCCTTAGAGGAAGCTGTTTATGTTTGTGT 0 8 1 ATTGAGAGGTTAAGAAAAAGGGTTTTTTGGGGAGTT 7 114 0 AGTATATCGGTAAGAAGAAGTAATATTAAACATGTG 2 222 1 CTAAACTTTCTAGGAGAAAGAGGATTTATTTTAACT 3 166 0 TCTTTCTATTTTGGAGAAAGCAAGCTGCATATCCTC 9 95 1 CCAAATGATTTGAGAGGAAGCACACAT 5 149 1 CAAAAAAACTTTGGAAAAAGGTTTTTTGAGAAGGTG 6 106 0 AAAATCCTTGGAAGAGCAAGGGTTGTGTGCACATGT 2 251 0 TTCTAAAAATTTAAAAAAAGTCTGCTATAAAAAGTG 1 139 1 ACTATAACTATAAGAAAAAGAAACGATGCTTCCAAG 3 133 0 GCTACACCCGCGAGAAGAAGAGCATTCTAGATAATC 6 179 0 CTAGATTGATTTAGACAAAGGATTATAACCGTTAAA 2 12 1 GGATAGCCAGTAAGGGGAAGAGAGTTAGCTGTTTCT 0 70 1 CGAACGAGGGTTGAAGGAAGGCCTCTTACGTGGATG 7 24 0 TGAAGAGGTGGTAAAAAAAGAAAAATTGGACTGCAA 6 72 0 CGTTCTTTGCGCAAAAAAAGAACTTTAAAAAGGTGA 4 232 1 TCTTTTTTAATAAGAGAAAAACGTGTTCCCATTCTC 9 25 1 ATGGATAAGCGGAGAGTAAGGTGTGTCAAATAAAAG 4 126 1 AACCCTCGTTCGAAAGAAAGCTACATCTTATGCTAT 7 48 1 AATTAGAACAAGCCAAGATGTAAGCTTG 7 282 0 GTGATTGTCGTAAGAAGAAAAATATTGCTACTATTT 9 186 1 CTTGACCCTAGAAAAGAAAGACCCCATCTAATTCAA 5 85 0 GTAGGATGAGCAAAAAAAAGAAAAAAAGAGAGGAAA 7 195 0 TTCCTTACAATTAAACAAAGAGAGAAAATT 8 4 0 * ******** * MAP Score: 15.9633 Motif 3 AAACTACAGGCAAAAAACTTGATTAGAAAT 0 137 0 TACAGTCAATAAAAGAGCTAAGATCATTTG 0 175 0 GCCTGACTCTAAAAAAGCTTCTAAAAATTT 1 121 1 TAAAAATTTAAAAAAAGTCTGCTATAAAAA 1 142 1 GTCTGCTATAAAAAGTGCTTTAATCTCCCA 1 158 1 CGACTTTACTAAAAAAGCTCATTTATAATT 2 92 1 GCAACTAGTTCAAAATCCTTGGAAGAGCAA 2 268 0 TCCTACTAGGAAAAAAGCTT 3 0 0 CAGCAAAAGTCAAGAAGCTTCCTACTAGGA 3 19 0 ATGTTACACCAAAAGAGTTTTCAGGACTAC 4 194 0 TTTGCGCAAAAAAAGAACTTTAAAAAGGTG 4 237 1 TATTCTCACGAAAAATGTTTCGTGATCTCA 4 265 0 AATTGGACTGCAAACAGCTTTAAAAAGGGG 6 55 0 TCACCTTCTCAAAAAACCTTTTTCCAAAGT 6 105 1 TAGGTTTTACAAAAAAACTTTGGAAAAAGG 6 121 0 TCAACTCCCCAAAAAACCCTTTTTCTTAAC 7 112 1 AGCGCTAAAAAAAAGAATTTCGACAAAAAA 7 247 0 TTAGCGCTCCAAACAAGCTTACATCTTGGC 7 269 1 ********** MAP Score: 11.95 Motif 4 GATAGCCAGTAAGGGGAAGAGAGTTAGCTGT 0 71 1 ACTTTTCGTAAAGGGAAAGGAATTGGGAGAT 1 180 0 AAATCCTTGGAAGAGCAAGGGTTGTGTGCAC 2 255 0 GTAAGCGACTAGGGAAAATGGGGCGCTTGGT 3 96 1 TAAACTTTCTAGGAGAAAGAGGATTTATTTT 3 170 0 GATTCCCATAAAGGATAAGGGAGAGTGGGTA 3 222 1 GAGTGGGTAGAGGATAAAGAGTGCCTCTGCA 3 244 1 GTGTAAAGAGAGGGAGTAGGGGTGAGGATGC 4 83 1 TGGATAAGCGGAGAGTAAGGTGTGTCAAATA 4 127 1 AAGAAATAATAGAGAGAAAAGGAGCAGGTTT 4 159 1 TTTCTTTTCTAGGGTCAAGAGTAGCCATAAC 5 102 1 GGAAAAATAGAGGAAGAAGAGAGGGTCAAAA 6 26 0 CTTTAAAAAGGGGAAAAATAGAGGAAGAAGA 6 37 0 GTTTTTTGAGAAGGTGAAGAGGTGGTAAAAA 6 91 0 CTACACCCGCGAGAAGAAGAGCATTCTAGAT 6 183 0 GTTATCCGGGAAAGAGAAGCGGGTGATGAGG 6 262 0 GGGATAGCATAAGATGTAGCTTTCTTTCGAA 7 56 0 TTGAGAGGTTAAGAAAAAGGGTTTTTTGGGG 7 118 0 GCAAAAAAAAGAAAAAAAGAGAGGAAAATTT 7 191 0 AAAAATCGAAGAGAGGAAGGGTAGGATGAGC 7 220 0 TTGGAGCGCTAAAAAAAAGAATTTCGACAAA 7 250 0 ATTGTTCCGGAGGGATAAGGTTATCAGCCCA 8 98 0 ATTTCCAAGAAAGAGAAAACGACCCAGTTTT 9 63 1 ***** ***** MAP Score: 9.58705 Motif 5 GGATAGCCAGTAAGGGGAAGAGAGTTAGCTGTTT 0 70 1 TAGCTGTTTCTTGATCAAAGAGAGTAGTTTCGAT 0 95 1 GCTCTTTTATTGACTGTAAGAGAATTAAGCTGTA 0 187 1 CATTCTAAATAAACAGACAGAGAACAACTTCTCC 1 31 1 CAACTTTTCGTAAAGGGAAAGGAATTGGGAGATT 1 179 0 TTTTATCAATTGCAGCAAAGAGAAGTTGAATAGA 2 139 0 TAACTATAACTATAAGAAAAAGAAACGATGCTTC 3 137 0 CTAAACTTTCTAGGAGAAAGAGGATTTATTTTAA 3 168 0 CCATAAAGGATAAGGGAGAGTGGGTAGAGGATAA 3 227 1 GGAGAGTGGGTAGAGGATAAAGAGTGCCTCTGCA 3 241 1 AAGAAATAATAGAGAGAAAAGGAGCAGGTTTTCG 4 159 1 TGGTAAGTTATCCGGGAAAGAGAAGCGGGTGATG 6 265 0 GAAGGCCTCTTACGTGGATGAGAGGGCGCGATAG 7 10 0 TTTCGACAAAAAAATCGAAGAGAGGAAGGGTAGG 7 226 0 TTCCTTACAATTAAACAAAGAGAGAAAATT 8 6 0 TTCTTGGAAATCCGAGAATGGGAACACGTTTTTC 9 40 0 TTCTCGGATTTCCAAGAAAGAGAAAACGACCCAG 9 56 1 GCTTTCTCCAAAATAGAAAGAGAAAACTGGGTCG 9 82 0 TTGAGAAATTTTGAAGAGAGAGGATATGCAGCTT 9 116 0 * ********* MAP Score: 9.21877 Motif 6 GCACACAACCCTTGCTCTTCCAAGGATTTTGA 2 257 1 AGCATCGTTTCTTTTTCTTATAGTTATAGTTA 3 139 1 AATAAATCCTCTTTCTCCTAGAAAGTTTAGAC 3 172 1 AAAGTTTAGACTTTCTCATCAAAAGATTAGAT 3 193 1 TAGATGGGGTCTTTCTTTTCTAGGGTCAAGAG 5 91 1 TTGACCCTCTCTTCTTCCTCTATTTTTCCCCT 6 28 1 CACCTCTTCACCTTCTCAAAAAACCTTTTTCC 6 98 1 CTATCGCGCCCTCTCATCCACGTAAGAGGC 7 8 1 GGAACAATGTCTCTCTTTACAACCTGTGCACC 8 121 1 GCTGCATATCCTCTCTCTTCAAAATTTCTCAA 9 118 1 ******* ** * MAP Score: 4.1372 Motif 7 ATCTCTCCTTAGAGGAAGCTGTTTATGTTTGTG 0 10 1 GATAGCCAGTAAGGGGAAGAGAGTTAGCTGTTT 0 71 1 CTTTTCGTAAAGGGAAAGGAATTGGGAGATTAA 1 177 0 ATCTAACACGAGAAAGTATAGCAGGGTTTTTAT 2 167 0 GTAAGCGACTAGGGAAAATGGGGCGCTTGGTAA 3 96 1 ACTTTCTAGGAGAAAGAGGATTTATTTTAACTA 3 165 0 ATAAAGGATAAGGGAGAGTGGGTAGAGGATAAA 3 229 1 GAGAGTGGGTAGAGGATAAAGAGTGCCTCTGCA 3 242 1 CTGTGTAAAGAGAGGGAGTAGGGGTGAGGATGC 4 81 1 GGAGTAGGGGTGAGGATGCGGCGTATTGTGGAT 4 95 1 GGATAAGCGGAGAGTAAGGTGTGTCAAATAAAA 4 128 1 AAGAAATAATAGAGAGAAAAGGAGCAGGTTTTC 4 159 1 GGAAAAATAGAGGAAGAAGAGAGGGTCAAAATT 6 24 0 AGGTTTTTTGAGAAGGTGAAGAGGTGGTAAAAA 6 91 0 GTTATCCGGGAAAGAGAAGCGGGTGATGAGGCT 6 260 0 AGAAAAAAAGAGAGGAAAATTTTGTTTTATAAA 7 180 0 AAAATCGAAGAGAGGAAGGGTAGGATGAGCAAA 7 217 0 TTATTAAAAAAGAGAATTACGCGCGTAC 9 5 0 TTTTTTAATAAGAGAAAAACGTGTTCCCATTCT 9 27 1 CAAAATAGAAAGAGAAAACTGGGTCGTTTTCTC 9 75 0 GAAATTTTGAAGAGAGAGGATATGCAGCTTGCT 9 113 0 ******** * * MAP Score: 3.93341 Motif 8 TGATGTAATATGTTTCCGTGAAATAAACGGGAGA 1 60 0 TTTTAGAAGCTTTTTTAGAGTCAGGCATTATTTA 1 113 0 TCCTAGATTGATTTAGACAAAGGATTATAACC 2 8 1 TTGATCATATTCTTACAGCAAAAGTCAAGAAGCT 3 30 0 AAGTCTAAACTTTCTAGGAGAAAGAGGATTTATT 3 172 0 GAATCTAATCTTTTGATGAGAAAGTCTAAACTTT 3 193 0 TCCTGAAAACTCTTTTGGTGTAACATGGTGGTCT 4 198 1 TTAAAGTTCTTTTTTTGCGCAAAGAACGAGACCA 4 226 0 TTTTCCAAAGTTTTTTTGTAAAACCTACAAGCAA 6 124 1 AGGAAAATTTTGTTTTATAAAAAGTGTTAAGGAT 7 167 0 TCTCTTCGATTTTTTTGTCGAAATTCTTTTTTTT 7 237 1 TTTCTCTCTTTGTTTAATTGTAAGGAATTGCTTT 8 13 1 CGCGTAATTCTCTTTTTTAATAAGAGAAAAACGT 9 15 1 GGTCGTTTTCTCTTTCTTGGAAATCCGAGAATGG 9 53 0 TTTCTCTTTCTATTTTGGAGAAAGCAAGCTGCAT 9 91 1 ATTGCTACTATTTTTGAGCCAAAGGACGGTTG 9 209 1 * *** * ***** MAP Score: 2.92651 Motif 9 TTAATCTCCCAATTCCTTTCCCTTTACGAAAAGTT 1 177 1 CAGTTTTTCTATTCAACTTCTCTTTGCTGCAATTG 2 132 1 TTTATCCTCTACCCACTCTCCCTTATCCTTTATGG 3 227 0 TTTGAATTAGATGGGGTCTTTCTTTTCTAGGGTCA 5 84 1 TCATCCACGTAAGAGGCCTTCCTTCAACCCTCGTT 7 23 1 TATAAAACAAAATTTTCCTCTCTTTTTTTCTTTTT 7 182 1 TGCTCATCCTACCCTTCCTCTCTTCGATTTTTTTG 7 219 1 TCCCTCCGGAACAATGTCTCTCTTTACAACCTGTG 8 114 1 AGCAAGCTGCATATCCTCTCTCTTCAAAATTTCTC 9 113 1 * ********* MAP Score: 2.17682 Motif 10 TAAATATCTATAACCATTCTAAATAAACAGA 1 17 1 TAACGGTTATAATCCTTTGTCTAAATCAATC 2 15 0 CAATTGATAAAAACCCTGCTATACTTTCTCG 2 161 1 ATGTGCACACAACCCTTGCTCTTCCAAGGAT 2 253 1 AAGCTTTTTTCCTAGTAGGAA 3 0 1 AGTTAAAATAAATCCTCTTTCTCCTAGAAAG 3 166 1 TGAGAAAGTCTAAACTTTCTAGGAGAAAGAG 3 180 0 CTTTATCCTCTACCCACTCTCCCTTATCCTT 3 232 0 TCCTCACCCCTACTCCCTCTCTTTACACAGC 4 80 0 CCTTCTCAAAAAACCTTTTTCCAAAGTTTTT 6 108 1 GCCTTCCTTCAACCCTCGTTCGAAAGAAAGC 7 38 1 CTCCCCAAAAAACCCTTTTTCTTAACCTCTC 7 116 1 CCTCTCAATTTATCCCCTCACACACTATCCT 7 141 1 TTGCTCATCCTACCCTTCCTCTCTTCGATTT 7 218 1 AATTTTCTCTCTTTGTTTAAT 8 0 1 GCAAGCTGCATATCCTCTCTCTTCAAAATTT 9 114 1 ** ******** MAP Score: 1.19613