AlignACE 3.0 10/20/99 AlignACE2 -i CT/CT_operons016_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944242574 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ileS 300 Isoleucyl-tRNA Synthetase #1 rl31 75 L31 Ribosomal Protein #2 pfrA 187 Peptide Chain Releasing Factor (RF-1) #3 rl19 25 L19 Ribosomal Protein #4 rnhB_2 63 Ribonuclease HII #5 leuS 196 Leucyl tRNA Synthetase #6 valS 126 Valyl tRNA Synthetase #7 atpK 41 ATP Synthase Subunit K #8 CT309 166 hypothetical protein #9 atpE 108 ATP Synthase Subunit E #10 CT691 160 hypothetical protein #11 murB 132 UDP-N-Acetylenolpyruvoylglucosamine Reductase #12 nusB 300 Transcription termination factor Motif 1 TCGCCTGAATCCCCTCTCTTTCATTTCCCTTT 0 56 0 TCCATTTATTGTGCTCTCTTCCGCTCGCTCGA 0 125 1 TCGAAAGTTTGATCGATCTGCTTACAAAGTTT 0 245 0 GTTCGGGTATGCTCTCCCTTCTGTTATGTGAG 1 15 1 TTTGAACAGAACTTTCTGTTATCTAGAGAA 2 8 1 GGGGTGTTCGCCCCGCTTTTCTCTAGATAACA 2 26 0 GGGGCGAACACCCCGCTTTTTTTGTTTTAATA 2 44 1 TGTTTTAATAAGTCTCTCTTTTTGAATCTGAC 2 66 1 GCTTAATGCCGCTCTCTTTTCTTTA 4 3 0 GCGGCATTAAGCCCTTTCTGCTGTTCTCAACG 4 23 1 AATCTTTACAGAGATCTCTGCTT 5 1 0 GCGAATCCATCATCTTTTTTTTAATGCGATCC 5 55 0 GAAGGTTGATGTGCGTTTTTTTGAAAAAAATA 7 15 1 TCCGCAAACTCGGAGTTTTTTTGTATGCGTTG 8 77 1 GCTCTCCAGAGATAGTTCTTCTTTTCTCAACG 8 104 0 GATCATAATTGATCGTTTTTTTAAGATAAACG 9 65 1 TATATTTTGGGAGCATTTTTCTCAAAGACAAT 10 124 1 AAAAGGTCTACACATTTCTTCTTATGGAAGAA 12 83 0 AGGGGCGATCGAGAGTTTTTTTGAAATAAAAA 12 135 0 TGGTAAACAGGTCCGCTCTTTCATAAAAATAA 12 166 1 TATATACTCGGGCCTTCCTTCCATTTTGGCGC 12 205 1 GCATAGCGTTGTACTCTTTTTTAGGTGTGATC 12 278 1 * ********* MAP Score: 17.5135 Motif 2 GGGTGTTCGCCCCGCTTTTCTCTAGATAAC 2 27 0 GGGCGAACACCCCGCTTTTTTTGTTTTAAT 2 45 1 CGCCTGAATCCCCTCTCTTTCATTTCCCTT 0 57 0 GGTAAACAGGTCCGCTCTTTCATAAAAATA 12 167 1 CTTAATGCCGCTCTCTTTTCTTTA 4 4 0 GCTCAGCCTTTCCTCCTTTCTTAGGGCGCC 12 232 0 TCGACCACAATCCGCTTTTAATGAACAAGT 0 23 0 AATCCGCTCTTACACCTTCAAC 8 154 0 TTTAATAAGTCTCTCTTTTTGAATCTGACT 2 69 1 TTCGGGTATGCTCTCCCTTCTGTTATGTGA 1 16 1 CCATTTATTGTGCTCTCTTCCGCTCGCTCG 0 126 1 CATAGCGTTGTACTCTTTTTTAGGTGTGAT 12 279 1 TTATGATCGATTCGCCTTTTAAACCGTTAA 0 171 0 ATGGAGGAACCACTCTTTTACTCCTAGGCC 0 100 0 CAGAGATAGTTCTTCTTTTCTCAACGCATA 8 100 0 AACGACTTCTTCTGCCTTTACTCTAGTATC 2 166 0 TGCGAATCCATCATCTTTTTTTTAATGCGA 5 58 0 AAAGAGTGGTTCCTCCATTTATTGTGCTCT 0 112 1 ********** MAP Score: 16.2298 Motif 3 GCCTGAATCCCCTCTCTTTCATTTCCCTTTGC 0 54 0 AATGGAGGAACCACTCTTTTACTCCTAGGCCA 0 99 0 CATTTATTGTGCTCTCTTCCGCTCGCTCGATA 0 127 1 TCGGGTATGCTCTCCCTTCTGTTATGTGAGAT 1 17 1 GGGGTGTTCGCCCCGCTTTTCTCTAGATAACA 2 26 0 GGGGCGAACACCCCGCTTTTTTTGTTTTAATA 2 44 1 TTTTAATAAGTCTCTCTTTTTGAATCTGACTT 2 68 1 GCTTAATGCCGCTCTCTTTTCTTTA 4 3 0 CTGGTATACACTTCCCTTTCCCCAATCTTTAC 5 24 0 AATCCGCTCTTACACCTTCAACTAA 8 151 0 GACGGAGTCGCTTCCCTTACTCTGTCATTCTA 11 50 0 AAAACTTCACTCCTTCTTCCATAAGAAGAAAT 12 70 1 GTAAACAGGTCCGCTCTTTCATAAAAATAATG 12 168 1 TATACTCGGGCCTTCCTTCCATTTTGGCGCCC 12 207 1 GCTCAGCCTTTCCTCCTTTCTTAGGGCGCCAA 12 230 0 GCATAGCGTTGTACTCTTTTTTAGGTGTGATC 12 278 1 ** ******* * MAP Score: 13.2835 Motif 4 ATGTAACTTGTTCATTAAAAGCGGATTGTG 0 18 1 TTTTAAACCGTTAATTAAAATATGCTTATC 0 155 0 GAGAGACTTATTAAAACAAAAAAAGCGGGG 2 54 0 AAAAGTCAGATTCAAAAAGAGAGACTTATT 2 72 0 CAGGATCGCATTAAAAAAAAGATGATGGAT 5 53 1 AGAGAAAACCTTAAAAATAACAACAGGTTA 5 170 1 TTCTATTTTTTTCAAAAAAACGCACATCAA 7 20 0 TCTCAACGCATACAAAAAAACTCCGAGTTT 8 82 0 AACGTTTATCTTAAAAAAACGATCAATTAT 9 69 0 GTGAAAAATCTTAGAAAAAAACAAAAAATT 10 48 1 CTTTTGAACCTTCATACAAAACATTTTTTT 12 110 1 ATTTTTTTATTTCAAAAAAACTCTCGATCG 12 132 1 GGTCCGCTCTTTCATAAAAATAATGACTCA 12 175 1 ********** MAP Score: 10.8515 Motif 5 TTTCTATTTTTTTCAAAAAAACGCACATCAA 7 20 0 AACATTTTTTTATTTCAAAAAAACTCTCGATCG 12 129 1 ACAGGTCCGCTCTTTCATAAAAATAATGACTCA 12 172 1 TAAAGTCTAGTGTTCCCCAAAAATTGATTGCCA 2 107 1 CTTCACTCCTTCTTCCATAAGAAGAAATGTGTA 12 74 1 TGTATTTCACCTAAAAATTCTTTTT 3 8 0 GCGTGAAAAATCTTAGAAAAAAACAAAAAATTT 10 46 1 TTTTTAATTGTCTTTGAGAAAAATGCTCCCAAA 10 129 0 AAACAACGTTTATCTTAAAAAAACGATCAATTA 9 70 0 CATTACCATCTATCACATTAGAATGACAGAGTA 11 32 1 GATCACACCTAAAAAAGAGTACAAC 12 285 0 * ** ** ***** MAP Score: 9.23943 Motif 6 TTTGCCTCGACCACAATCCGCTTTTAATGAACAA 0 25 0 GCCTGAATCCCCTCTCTTTCATTTCCCTTTGCCT 0 52 0 AAGAGTGGTTCCTCCATTTATTGTGCTCTCTTCC 0 113 1 GTTCGGGTATGCTCTCCCTTCTGTTATGTGAGAT 1 15 1 GGGGTGTTCGCCCCGCTTTTCTCTAGATAACAGA 2 24 0 GATTGCCAATGTACACTCTGGTCTTTGTTAGAGA 2 132 1 CTTCTTCTGCCTTTACTCTAGTATCTCTCTAACA 2 157 0 GCTTAATGCCGCTCTCTTTTCTTTA 4 1 0 TATACACTTCCCTTTCCCCAATCTTTACAGAGAT 5 18 0 GTCTGCGAATCCATCATCTTTTTTTTAATGCGAT 5 57 0 TCGAAATCAAGTCCTCTCCAGTCTGCGAATCCAT 5 77 0 GCCTTACTTCCATATGTTGTGACTA 6 111 0 GAGTCGCTTCCCTTACTCTGTCATTCTAATGTGA 11 44 0 GCGCCTAAAACTTCACTCCTTCTTCCATAAGAAG 12 64 1 TGGTAAACAGGTCCGCTCTTTCATAAAAATAATG 12 166 1 TATACTCGGGCCTTCCTTCCATTTTGGCGCCCTA 12 207 1 AAGGCTCAGCCTTTCCTCCTTTCTTAGGGCGCCA 12 231 0 **** **** * * MAP Score: 9.22642 Motif 7 AATCCGTTAGTTAAGAAATACCTGTTTAGGA 0 199 1 TTCTGTTATCTAGAGAAAAGCGGGGCGAACA 2 23 1 TAAAGAAAAGAGAGCGGCATT 4 0 1 TCTCTTGACGTTGAGAACAGCAGAAAGGGCT 4 32 0 AGGATCGCATTAAAAAAAAGATGATGGATTC 5 54 1 CTTGCACTTAGAGAGAAATAAGCGTCAAACA 5 127 0 CTATTTTTTTCAAAAAAACGCACATCAACCT 7 17 0 TTTGTATGCGTTGAGAAAAGAAGAACTATCT 8 96 1 ACGTTTATCTTAAAAAAACGATCAATTATGA 9 67 0 TGAAAAATCTTAGAAAAAAACAAAAAATTTT 10 49 1 AATTGTCTTTGAGAAAAATGCTCCCAAAATA 10 126 0 TCAAAGACAATTAAAAAAGGCTTAT 10 145 1 TTTTTTGAAATAAAAAAATGTTTTGTATGAA 12 120 0 TTTTGGCGCCCTAAGAAAGGAGGAAAGGCTG 12 228 1 ******** ** MAP Score: 6.87958 Motif 8 AACACCCCGCTTTTTTTGTTTTAATAAGTC 2 50 1 CGTTGTACTCTTTTTTAGGTGTGATC 12 284 1 AAACTCGGAGTTTTTTTGTATGCGTTGAGA 8 82 1 CCTGTTGTTATTTTTAAGGTTTTCTCTCCT 5 167 0 CGATCGAGAGTTTTTTTGAAATAAAAAAAT 12 132 0 TTGATGTGCGTTTTTTTGAAAAAAATAGAA 7 20 1 AAGAACCAAAATTTTTTGTTTTTTTCTAAG 10 57 0 TAAACGTTGTTTTTCTTGGTATCAGAT 9 91 1 AAAAAGAATTTTTAGGTGAAATACA 3 7 1 ATTGATCGTTTTTTTAAGATAAACGTTGTT 9 72 1 TCCATCATCTTTTTTTTAATGCGATCCTGG 5 52 0 ATAAGCCTTTTTTAATTGTCTTTGAGA 10 143 0 TGAGTCATTATTTTTATGAAAGAGCGGACC 12 175 0 GTCTAGAGAGTTTCTTAGTTGAAGGTGTAA 8 137 1 ********** MAP Score: 6.25825 Motif 9 CCTTTGCCTCGACCACAATCCGCTTTTAATGAACAAGTTAC 0 20 0 TGAAAGAGAGGGGATTCAGGCGATTATATGGGGTTGGCCTA 0 65 1 GAGTAAAAGAGTGGTTCCTCCATTTATTGTGCTCTCTTCCG 0 107 1 AAGGCGAATCGATCATAATCCGTTAGTTAAGAAATACCTGT 0 183 1 GTTCGGGTATGCTCTCCCTTCTGTTATGTGAGATTTTCACA 1 15 1 AAAGCGGGGTGTTCGCCCCGCTTTTCTCTAGATAACAGAAA 2 22 0 AAAAGAGAGCGGCATTAAGCCCTTTCTGCTGTTCTCAACGT 4 15 1 AGCTATGTATCTCCTACTATTTGAAGGGGACCTCGAG 10 6 1 CGCAATACTTGATAATAATCCTCATCTATAGGTACCATGTA 12 26 0 TATATACTCGGGCCTTCCTTCCATTTTGGCGCCCTAAGAAA 12 205 1 CGAAGGCTCAGCCTTTCCTCCTTTCTTAGGGCGCCAAAATG 12 226 0 * **** * ** * * MAP Score: 4.26934 Motif 10 TTATTGTGCTCTCTTCCGCTCGCTCGATAAGCA 0 130 1 AGATCGATCAAACTTTCGAAAGCATCAAAACCC 0 258 1 AAATCAAGTCCTCTCCAGTCTGCGAATCCATCA 5 75 0 AACTAAGAAACTCTCTAGACAGCTCTCCAGAGA 8 124 0 GTTCTTAGTACATTCTAGATTGCAAATATATAT 10 81 1 CTCCGCTCTAGACTGCTACATGGTAC 12 3 1 ATTTCAAAAAAACTCTCGATCGCCCCTGGTAAA 12 140 1 * ******* ** MAP Score: 3.43011 Motif 11 CTAAGATAGTGATTTTGGGGTTGTCAA 1 58 1 ACACCCCGCTTTTTTTGTTTTAATAAGTCTCTCT 2 51 1 AAAAAGAATTTTTAGGTGAAATACA 3 8 1 CTTACTTCCATATGTTGTGACTATTCTCGCATCT 6 100 0 CTTAAGGGGCTATGTTGGTTAAATCGTTATTGGG 8 21 1 TGGTTAAATCGTTATTGGGAAAATTCGTTGACGA 8 36 1 AAACGTTGTTTTTCTTGGTATCAGAT 9 92 1 GAAGGAGGTATATTTTGGGAGCATTTTTCTCAAA 10 116 1 CCGTCCAAGATATCTTGGGCTTGTGTCGCTTCCC 11 77 1 ATAATCCTCATCTATAGGTACCATGTAGCAGTCT 12 19 0 GTTGTACTCTTTTTTAGGTGTGATC 12 285 1 *** ***** ** MAP Score: 3.10082 Motif 12 TATGTGAGATTTTCACATACTAAGATAGTGATT 1 39 1 TGTATTTCACCTAAAAATTCTTTTT 3 8 0 TGTATACCAGGATCGCATTAAAAAAAAGATGAT 5 46 1 TTAACCAACATAGCCCCTTAAGCCAAAGATCCT 8 10 0 CTTCTTTTCTCAACGCATACAAAAAAACTCCGA 8 86 0 AATCCGCTCTTACACCTTCAACTAAGAAACTC 8 144 0 TCACGCTCGAGGTCCCCTTCAAATAGTAGGAGA 10 19 0 TCCCAAAATATACCTCCTTCATATATATATTTG 10 103 0 CATTACCATCTATCACATTAGAATGACAGAGTA 11 32 1 TTATCAAGTATTGCGCCTAAAACTTCACTCCTT 12 52 1 GCCTAAAACTTCACTCCTTCTTCCATAAGAAGA 12 66 1 TGTAGACCTTTTGAACCTTCATACAAAACATTT 12 103 1 GATCACACCTAAAAAAGAGTACAAC 12 285 0 * * ******** MAP Score: 1.14398