AlignACE 3.0 10/20/99 AlignACE2 -i CP/CP_operons013_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944237826 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ydaO 256 PP-Loop Superfamily ATPase #1 CPn0379 153 CT053 hypothetical protein #2 rpoD 158 RNA Polymerase Sigma-66 #3 folX 53 Dihydroneopterin Aldolase #4 CPn0767 101 CT645 hypothetical protein #5 alaS 232 Alanyl tRNA Synthetase #6 pssA 300 Glycerol-Serine Phosphatidyltransferase #7 mesJ 118 PP-loop superfamily ATPase #8 ftsH 187 ATP-dependent zinc protease Motif 1 GGTTTTTTAAAGAAAAATCCTTCTTATGTT 6 69 0 CCAAGGTTAAAGAAAAAAGCAATAGGTTTT 0 82 0 TTTCTGCAGTTGAAAAAACAAAAAAATGCT 1 96 1 ATTTTGTTTTAGAAAAAATATTTTAAACTA 8 105 0 AGCGTATAAGATAAAAATCCCTAGATTTCC 2 72 1 CGATCTGTTTTGAAAAATCCCTAGCAACAC 7 63 1 GGATTTTTCTTTAAAAAACCCAATATGTAG 6 79 1 TTTCAACTGCAGAAAAAAAACAAAGATTTT 1 81 0 ATACGCCTATATAAAAATCATTGAAAAGAA 7 95 0 TGTTGATTTTAGAAGAATCCATTATGCTAC 6 253 1 AAACAAAATAATAAAAAATATGTTATATTG 8 126 1 ATAGCCTTGTATAAAAAATATTGCTCTG 3 35 1 TAACAGCCAAATAAAAAATATGAACAGGCA 8 75 0 GAAATCGCTGTTAAAAATCCAGAAACTTAT 0 196 0 ATACAAGGCTATAAAAAACGAACCTTTTAC 3 17 0 TTCCTGCAATTGAAAAATGCTCCCTTTCTC 6 154 1 TCCTCATAGAAGAAGAAATAGTA 2 3 0 AAAAGTAGAAAGAAAAACGCCTTTAAACAT 6 44 1 GTTAATAAAAAGAAGAAAAACTTAATGAAT 0 124 1 CTCTTTTTCAAGAAAAACACATATTAATTA 4 60 1 TTTTCAAAAAAAAAAAAATCTTTGTTTTTT 1 67 1 TTTTTTTTTTTGAAAAATAAAAATTTGCTA 1 53 0 TCAAATCTCAATAATAAACAGGAAAGTTTT 5 120 1 TCTCTATATGTGAAAAAAAGAGAGAACACT 8 30 1 AATATTATTCTTAAGAAATCGCTGTTAAAA 0 210 0 CCTTTATATTTTAAGAATTCTTGAGCT 4 7 0 ********** MAP Score: 22.1812 Motif 2 TGCATTTGACTTTGGATTTTATTTTGAGCTTA 0 50 0 TGCAAAAACCTATTGCTTTTTTCTTTAACCTT 0 78 1 ATTCATTAAGTTTTTCTTCTTTTTATTAACGA 0 122 0 TCATAGCAAATTTTTATTTTTCAAAAAAAAAA 1 50 1 AAACAAAGATTTTTTTTTTTTTGAAAAATAAA 1 62 0 AAAAAAAAAATCTTTGTTTTTTTTCTGCAGTT 1 75 1 CATAGCATTTTTTTGTTTTTTCAACTGCAGAA 1 97 0 TACTATTTCTTCTTCTATGAGGAAA 2 3 1 GTTGGTAAGATATTGATTTTCGTCAGCGTATA 2 48 1 TAGAAATCCCCTTGTTTTATTCCAAGTAAGAA 2 134 1 GTAAAAGGTTCGTTTTTTATAGCCTTGTATAA 3 17 1 CAGAGCAATATTTTTTATACAAGGCTATAA 3 33 0 TTATAATTAATATGTGTTTTTCTTGAAAAAGA 4 61 0 GGTAAGAGTTCCTTGCTTTTTGCTTGGGGATT 5 55 0 ATCGAAAATTCATTTGTTTTTGAAAGAATTAC 5 89 0 AAAACTTTCCTGTTTATTATTGAGATTTGATC 5 118 0 ATAGGAGAGTTCTTTATTTTCGTCTCTATCCC 5 164 0 TGCAAAAACTTGTTGATTTTAGAAGAATCCAT 6 243 1 CCTAGTGTTCTCTCTTTTTTTCACATATAGAG 8 31 0 TGCCTGTTCATATTTTTTATTTGGCTGTTATA 8 75 1 TATAACATATTTTTTATTATTTTGTTTTAGAA 8 121 0 * *** ****** MAP Score: 19.6875 Motif 3 TAGCAAATTTTTATTTTTCAAAAAAAAAAAAATCT 1 53 1 ATAAGAAGGATTTTTCTTTAAAAAACCCAATATGT 6 72 1 TATTTGGCTGTTATAGTTTAAAATATTTTTTCTAA 8 92 1 CTATCCCTAATTTTTAGTTAAAAAACTTTCCTGTT 5 136 0 AATGCTCCCTTTCTCGGTAAAAATATCATACTCTA 6 169 1 ATTATCTTCTCTATATGTGAAAAAAAGAGAGAACA 8 23 1 TTTTCCTTTGTTATAATTAAAAAGTAGAAAGAAAA 6 25 1 GAAAATTCATTTGTTTTTGAAAGAATTACAAGGTA 5 83 0 TTTTTTATTATTTTGTTTTAGAAAAAATATTTTAA 8 109 0 TGTTTTTTTTCTGCAGTTGAAAAAACAAAAAAATG 1 89 1 GGATAGAGGGCTCTTTTTCAAGAAAAACACATATT 4 50 1 CCTGGAGACCTTCTATGTAAAAGCAGCAACTATAG 5 18 1 TAAAGGAATATTATTCTTAAGAAATCGCTGTTAAA 0 211 0 ATAGCTGCCTTTATATTTTAAGAATTCTTGAGCT 4 9 0 TCATGGTTTCCTGCAATTGAAAAATGCTCCCTTTC 6 147 1 AAAGAGCCCTCTATCCATTAAAATAGCTGCCTTTA 4 31 0 TCTTTGAGTAAAAGGTTCGTTTTTTA 3 1 1 TGCAAAACCGCTGCCGTTGAGAGTTCTTTTTC 5 210 1 ** * ** **** * MAP Score: 18.5689 Motif 4 TTTTAGAAAAGTCTAAATAAGCTCAAAATAAAATCCAAA 0 33 1 TAGGTTCCAAGGTTAAAGAAAAAAGCAATAGGTTTTTGC 0 79 0 AGTACTCGTTAATAAAAAGAAGAAAAACTTAATGAATAA 0 117 1 AGAAATCGCTGTTAAAAATCCAGAAACTTATAGTTCAGG 0 188 0 ATTTTTATTTTTCAAAAAAAAAAAAATCTTTGTTTTTTT 1 59 1 TTTTTCTGCAGTTGAAAAAACAAAAAAATGCTATGCACC 1 94 1 CAGCGTATAAGATAAAAATCCCTAGATTTCCTATCTTCC 2 71 1 TTCTTACTTGGAATAAAACAAGGGGATTTCTAGCCTTAG 2 127 0 TTTATACAAGGCTATAAAAAACGAACCTTTTACTCAAAG 3 11 0 TTATAGCCTTGTATAAAAAATATTGCTCTG 3 33 1 GAGACCTTCTATGTAAAAGCAGCAACTATAGGAAATCCC 5 22 1 AAATCCCCAAGCAAAAAGCAAGGAACTCTTACCTTGTAA 5 54 1 TTGTAATTCTTTCAAAAACAAATGAATTTTCGATCAAAT 5 87 1 TAGGGATAGAGACGAAAATAAAGAACTCTCCTATAATGG 5 162 1 TTATAACAAAGGAAAAAGTACTCCAATATTT 6 2 0 TAATTAAAAAGTAGAAAGAAAAACGCCTTTAAACATAAG 6 38 1 TCCCTTTCTCGGTAAAAATATCATACTCTAGGAGCTTTT 6 174 1 CTCTATATGTGAAAAAAAGAGAGAACACTAGGTCATTGT 8 31 1 ATTTTGTTTTAGAAAAAATATTTTAAACTATAACAGCCA 8 96 0 ATTTTTTCTAAAACAAAATAATAAAAAATATGTTATATT 8 116 1 * **** * ** ** MAP Score: 18.1915 Motif 5 CCACACAAGATCTTTTAGAAAAGTCTAAATAAGCTCAAAATA 0 21 1 AACCTAGTACTCGTTAATAAAAAGAAGAAAAACTTAATGAAT 0 112 1 AAAGGAATATTATTCTTAAGAAATCGCTGTTAAAAATCCAGA 0 203 0 AAGATTTTTTTTTTTTTGAAAAATAAAAATTTGCTATGAAGC 1 47 0 GTTTTTTTTCTGCAGTTGAAAAAACAAAAAAATGCTATGCAC 1 90 1 AAAATCAATATCTTACCAACAATTTGATACAACTTTCCTCAT 2 26 0 TTCGTCAGCGTATAAGATAAAAATCCCTAGATTTCCTATCTT 2 66 1 CAGAGCAATATTTTTTATACAAGGCTATAAAAAACGAACCTT 3 21 0 AGAGGGCTCTTTTTCAAGAAAAACACATATTAATTATAATTA 4 54 1 CCTGGAGACCTTCTATGTAAAAGCAGCAACTATAGGAAATCC 5 18 1 AATTCATTTGTTTTTGAAAGAATTACAAGGTAAGAGTTCCTT 5 73 0 CAGGAAAGTTTTTTAACTAAAAATTAGGGATAGAGACGAAAA 5 138 1 TCTTTCTACTTTTTAATTATAACAAAGGAAAAAGTACTCCAA 6 15 0 TAAGAAGGATTTTTCTTTAAAAAACCCAATATGTAGTGAAAC 6 73 1 CAAAAACTTGTTGATTTTAGAAGAATCCATTATGCTACGAGC 6 245 1 GGCTTACCTGGTAATTACAATTTCTTAGATGCCTTGATAG 7 8 1 AGTCACGATCTGTTTTGAAAAATCCCTAGCAACACTATTCTT 7 58 1 TTATCTTCTCTATATGTGAAAAAAAGAGAGAACACTAGGTCA 8 24 1 GAAAAAATATTTTAAACTATAACAGCCAAATAAAAAATATGA 8 82 0 GTTTAAAATATTTTTTCTAAAACAAAATAATAAAAAATATGT 8 107 1 * ** ** ** * ** MAP Score: 14.3111 Motif 6 AGATTTTTTTTTTTTTGAAAAATAAAAATTTGCTAT 1 52 0 TTTTGTTTTTTCAACTGCAGAAAAAAAACAAAGATT 1 83 0 ATCCCCTTGTTTTATTCCAAGTAAGAAAG 2 139 1 AGCTCAAGAATTCTTAAAATATAAAGGCAGCTATT 4 9 1 GATAGAGGGCTCTTTTTCAAGAAAAACACATATTAA 4 51 1 AAAACACATATTAATTATAATTAAGAGAGTAAAATA 4 73 1 TACCTTGTAATTCTTTCAAAAACAAATGAATTTTCG 5 83 1 TAAACAGGAAAGTTTTTTAACTAAAAATTAGGGATA 5 134 1 TACTTTTTCCTTTGTTATAATTAAAAAGTAGAAAGA 6 21 1 ACATATTGGGTTTTTTAAAGAAAAATCCTTCTTATG 6 71 0 ATTGTCATGGTTTCCTGCAATTGAAAAATGCTCCCT 6 143 1 TGTTGCTAGGGATTTTTCAAAACAGATCGTGACTCT 7 56 0 TTTTTATTTGGCTGTTATAGTTTAAAATATTTTTTC 8 88 1 GTTTAAAATATTTTTTCTAAAACAAAATAATAAAAA 8 107 1 * * ** ** * *** MAP Score: 2.98177 Motif 7 GAACCTAGTACTCGTTAATAAAAAGAAGAAAAAC 0 111 1 TTAACAGCGATTTCTTAAGAATAATATTCCTTTA 0 212 1 TTTTTTTTTTTTGAAAAATAAAAATTTGCTATGA 1 50 0 GTTTTTTCAACTGCAGAAAAAAAACAAAGATTTT 1 81 0 TTTTCTGCAGTTGAAAAAACAAAAAAATGCTATG 1 95 1 ACTTTCCTCATAGAAGAAGAAATAGTA 2 3 0 TTTTATAGCCTTGTATAAAAAATATTGCTCTG 3 31 1 TAGAGGGCTCTTTTTCAAGAAAAACACATATTAA 4 53 1 TACCTTGTAATTCTTTCAAAAACAAATGAATTTT 5 83 1 TCGATCAAATCTCAATAATAAACAGGAAAGTTTT 5 116 1 AACAGGAAAGTTTTTTAACTAAAAATTAGGGATA 5 136 1 GAAAAACGCCTTTAAACATAAGAAGGATTTTTCT 6 55 1 TAATGGATTCTTCTAAAATCAACAAGTTTTTGCA 6 243 0 TCCATTATGCTACGAGCAAAAGAAACTCTGGCAA 6 270 1 TATTATTTTGTTTTAGAAAAAATATTTTAAACTA 8 105 0 ** * ** ***** MAP Score: 1.66369 Motif 8 CTTATTTAGACTTTTCTAAAAGATCTTGTGT 0 23 0 TTAACAGCGATTTCTTAAGAATAATATTCCT 0 212 1 GATTTTTTTTTTTTTGAAAAATAAAAATTTG 1 56 0 CCTATCTTCCTTTGACTAAACTGTCCTCTAA 2 100 1 TAGAGGGCTCTTTTTCAAGAAAAACACATAT 4 53 1 ACCTTGTAATTCTTTCAAAAACAAATGAATT 5 84 1 AAGAAGGATTTTTCTTTAAAAAACCCAATAT 6 74 1 AACTTGTTGATTTTAGAAGAATCCATTATGC 6 249 1 TTGCTAGGGATTTTTCAAAACAGATCGTGAC 7 59 0 ATCTTCTCTATATGTGAAAAAAAGAGAGAAC 8 26 1 TTTAAAATATTTTTTCTAAAACAAAATAATA 8 108 1 *** ******* MAP Score: 0.539065 Motif 9 TCCAAGGTTAAAGAAAAAAGCAATAGGTTTTTGCATTTGA 0 73 0 AGTACTCGTTAATAAAAAGAAGAAAAACTTAATGAATAAT 0 117 1 GAAAACAATGAATGGATGGTTAAAGGAATA 0 236 0 TTTATTTTTCAAAAAAAAAAAAATCTTTGTTTTTTTTCTG 1 62 1 TCAACTGCAGAAAAAAAACAAAGATTTTTTTTTTTTTGAA 1 69 0 TCTGCAGTTGAAAAAACAAAAAAATGCTATGCACCTGCTC 1 98 1 ATACAAGGCTATAAAAAACGAACCTTTTACTCAAAGA 3 7 0 GAATTCTTAAAATATAAAGGCAGCTATTTTAATGGATAGA 4 17 1 GCTCTTTTTCAAGAAAAACACATATTAATTATAATTAAGA 4 59 1 AATTCTTTCAAAAACAAATGAATTTTCGATCAAATCTCAA 5 91 1 AAATCTCAATAATAAACAGGAAAGTTTTTTAACTAAAAAT 5 122 1 GATAGAGACGAAAATAAAGAACTCTCCTATAATGGCAAGG 5 166 1 AAAAAGTAGAAAGAAAAACGCCTTTAAACATAAGAAGGAT 6 43 1 CGCCTTTAAACATAAGAAGGATTTTTCTTTAAAAAACCCA 6 61 1 TATATGTGAAAAAAAGAGAGAACACTAGGTCATTGTATTA 8 34 1 ACAGCCAAATAAAAAATATGAACAGGCACTAATACAATGA 8 63 0 TCTAAAACAAAATAATAAAAAATATGTTATATTGAATAAT 8 122 1 ** ***** ** * MAP Score: 0.109316