AlignACE 3.0 10/20/99 AlignACE2 -i TP/TP_operons030_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944240050 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 TP0054 170 conserved hypothetical protein #1 TP0091 181 cysteinyl-tRNA synthetase (cysS) #2 TP0109 300 rRNA methylase, putative #3 TP0511 42 transcription factor (carD) #4 TP0512 44 conserved hypothetical protein Motif 1 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAG 0 8 1 ATTTTTACGCCCGCCGCAATTGAGAATTCAAAGTCCA 0 54 0 AAGACACAGAGCCCTGCAGACAGACATTTTTACGCCC 0 79 0 AAGGCCAAGACCGCGCCATTGTAGCATAAGCGCGTGA 1 31 0 TTGCCCGCCTGCGCTTCAGTCTACCCTCCCTCGAAAC 1 74 0 AAAGGCGTTTGCGCGACAATGGGGCTGGGCGTGGTCC 1 109 1 CGCACGTGTTCTGCGCCCGGTTGGGAGAAACTTCGAA 1 145 1 GTGCGCCCCTTCGAAGTTTCTCCCAACCG 1 162 0 AGCTGCCAGTCTGCGTCGGTCAAGTGGAGGTACCGGG 2 124 0 GCCATCAGCAGCCCCACAGCACACGCGCATTCCGGCA 2 161 1 TGACTGGAAGGAGCGACTGCACAATTGTATCGGCAAT 2 215 0 CTTTGCAATAGCGCTACTGACTGGAAGGAGCGACTGC 2 232 0 CTATTGCAAAGCGCGCCTGGCTGCGATACAAGGAGGA 2 258 1 GTACAAAAGGGTGCGCCAGTCTACACGTTCTTTGTGT 3 14 1 CCCGCGCCGCGTTGCTTGTCACCGCTGC 4 1 1 TTGCTTGTCACCGCTGCAGGCAGCTCTGCACGC 4 21 1 ***** * * ** * MAP Score: 28.5577 Motif 2 TGCCCGCACTCAGGAGGAGGTTTCATC 0 6 0 AGTATACTACCCTGTGCCCGCACTCAGGAGG 0 20 0 ATTCTCAATTGCGGCGGGCGTAAAAATGTCT 0 64 1 AAGACACAGAGCCCTGCAGACAGACATTTTT 0 85 0 ACAAAACAGGGACCACCACACAAGACACAGA 0 106 0 GCCATTGTAGCATAAGCGCGTGAAATCGTAT 1 23 0 CAAAGAAGGCCAAGACCGCGCCATTGTAGCA 1 42 0 AGGGTAGACTGAAGCGCAGGCGGGCAAAGGC 1 84 1 ACGTGCGGACCACGCCCAGCCCCATTGTCGC 1 121 0 GGGCGCAGAACACGTGCGGACCACGCCCAGC 1 132 0 AAGTTTCTCCCAACCGGGCGCAGAACACGTG 1 147 0 TGTAATGGTAGCACCGCAGATTCTGGTTCTG 2 10 0 ACCAGGGAGGGAGGCCCAGGCTAGTACGACA 2 43 1 CTGCGTCGGTCAAGTGGAGGTACCGGGTAAG 2 120 0 CTCCACTTGACCGACGCAGACTGGCAGCTGC 2 132 1 TGGCAGCTGCCATCAGCAGCCCCACAGCACA 2 153 1 ATCAGCAGCCCCACAGCACACGCGCATTCCG 2 164 1 CAAAGACACACAACTGCACATTGCCGATACA 2 196 1 TAGCGCTATTGCAAAGCGCGCCTGGCTGCGA 2 253 1 AACGTGTAGACTGGCGCACCCTTTTGTACTA 3 12 0 TTGCTTGTCACCGCTGCAGGCAGCTCTGCAC 4 21 1 GCTGCAGGCAGCTCTGCACGC 4 33 1 ** ******** MAP Score: 25.7588 Motif 3 CTCCTCCTGAGTGCGGGCACAGGGTAGTATACTT 0 18 1 TTTGAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 59 1 TATGCTACAATGGCGCGGTCTTGGCCTTCTTTGC 1 40 1 GGGTAGACTGAAGCGCAGGCGGGCAAAGGCGTTT 1 85 1 GTTTGCGCGACAATGGGGCTGGGCGTGGTCCGCA 1 115 1 CGCACGTGTTCTGCGCCCGGTTGGGAGAAACTTC 1 145 1 CATTACACAACCAGGGAGGGAGGCCCAGGCTAGT 2 34 1 TCCACTTGACCGACGCAGACTGGCAGCTGCCATC 2 133 1 CGGAATGCGCGTGTGCTGTGGGGCTGCTGATGGC 2 161 0 CCCACAGCACACGCGCATTCCGGCAAAGACACAC 2 173 1 CTATTGCAAAGCGCGCCTGGCTGCGATACAAGGA 2 258 1 AACACAAAGAACGTGTAGACTGGCGCACCCTTTT 3 18 0 CGGTGACAAGCAACGCGGCGCGGG 4 0 0 GAGCTGCCTGCAGCGGTGACAAGCAACGCGGCGC 4 13 0 GCGTGCAGAGCTGCCTGCAGCGGT 4 30 0 * **** * * *** MAP Score: 19.3749 Motif 4 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAGT 0 8 1 GGACTTTGAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 55 1 CACGCGCTTATGCTACAATGGCGCGGTCTTGGCCTTCT 1 32 1 AAGGCGTTTGCGCGACAATGGGGCTGGGCGTGGTCCGC 1 110 1 CCCAACCGGGCGCAGAACACGTGCGGACCACGCCCAGC 1 132 0 ACTTGACCGACGCAGACTGGCAGCTGCCATCAGCAGCC 2 136 1 TCAGCAGCCCCACAGCACACGCGCATTCCGGCAAAGAC 2 165 1 TGCACATTGCCGATACAATTGTGCAGTCGCTCCTTCCA 2 210 1 CGCCGCGTTGCTTGTCACCGCTGCAGGCAGCTCTGCAC 4 14 1 *** ** * ** * * MAP Score: 13.8037 Motif 5 AACCTCCTCCTGAGTGCGGGCACAGGGTAGTATAC 0 15 1 CTTTGAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 58 1 ACACAAGACACAGAGCCCTGCAGACAGACATTTTT 0 85 0 GCGCTTATGCTACAATGGCGCGGTCTTGGCCTTCT 1 35 1 CGAGGGAGGGTAGACTGAAGCGCAGGCGGGCAAAG 1 78 1 GCGTTTGCGCGACAATGGGGCTGGGCGTGGTCCGC 1 113 1 CGAAGTTTCTCCCAACCGGGCGCAGAACACGTGCG 1 145 0 TGGGAGAAACTTCGAAGGGGCGCAC 1 166 1 CAGAACCAGAATCTGCGGTGCTACCATTAC 2 5 1 GCTACCATTACACAACCAGGGAGGGAGGCCCAGGC 2 29 1 GTACCTCCACTTGACCGACGCAGACTGGCAGCTGC 2 128 1 TGTGGGGCTGCTGATGGCAGCTGCCAGTCTGCGTC 2 144 0 TTTGCCGGAATGCGCGTGTGCTGTGGGGCTGCTGA 2 165 0 ACAGCACACGCGCATTCCGGCAAAGACACACAACT 2 176 1 ACATTGCCGATACAATTGTGCAGTCGCTCCTTCCA 2 213 1 CTCCTTGTATCGCAGCCAGGCGCGCTTTGCAATAG 2 258 0 AAAGAACGTGTAGACTGGCGCACCCTTTTGTACTA 3 12 0 AGCGGTGACAAGCAACGCGGCGCGGG 4 1 0 GCGTGCAGAGCTGCCTGCAGCGGTGACAAGCAACG 4 19 0 * ** ** **** * MAP Score: 13.7282 Motif 6 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAGT 0 8 1 ACAGGGACCACCACACAAGACACAGAGCCCTGCAGACA 0 94 0 GCCTTCTTTGCGTTTCGAGGGAGGGTAGACTGAAGCGC 1 63 1 GCGCAAACGCCTTTGCCCGCCTGCGCTTCAGTCTACCC 1 85 0 ACGTGCGGACCACGCCCAGCCCCATTGTCGCGCAAACG 1 114 0 CGAAGTTTCTCCCAACCGGGCGCAGAACACGTGCGGAC 1 142 0 CAGAACCAGAATCTGCGGTGCTACCATT 2 0 1 GCTACCATTACACAACCAGGGAGGGAGGCCCAGGCTAG 2 29 1 AGATCAAAAACTTACCCGGTACCTCCACTTGACCGACG 2 110 1 CTCCACTTGACCGACGCAGACTGGCAGCTGCCATCAGC 2 132 1 TGGCAGCTGCCATCAGCAGCCCCACAGCACACGCGCAT 2 153 1 AGTTGTGTGTCTTTGCCGGAATGCGCGTGTGCTGTGGG 2 173 0 AGCGCTATTGCAAAGCGCGCCTGGCTGCGATACAAGGA 2 254 1 TGCTTGTCACCGCTGCAGGCAGCTCTGCACGC 4 22 1 * **** * * * ** MAP Score: 13.5652 Motif 7 ACCCTGTGCCCGCACTCAGGAGGAGGTTTCATC 0 5 0 GGACTTTGAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 55 1 CACGCGCTTATGCTACAATGGCGCGGTCTTGGCCTTCT 1 32 1 TGGCCTTCTTTGCGTTTCGAGGGAGGGTAGACTGAAGC 1 61 1 TAGACTGAAGCGCAGGCGGGCAAAGGCGTTTGCGCGAC 1 88 1 AAGGCGTTTGCGCGACAATGGGGCTGGGCGTGGTCCGC 1 110 1 CCCAACCGGGCGCAGAACACGTGCGGACCACGCCCAGC 1 132 0 TGATGGCAGCTGCCAGTCTGCGTCGGTCAAGTGGAGGT 2 130 0 AATGCGCGTGTGCTGTGGGGCTGCTGATGGCAGCTGCC 2 154 0 AGGCGCGCTTTGCAATAGCGCTACTGACTGGAAGGAGC 2 238 0 *** ** **** * MAP Score: 8.65031 Motif 8 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAGTATACTTGAT 0 8 1 GGACTTTGAATTCTCAATTGCGGCGGGCGTAAAAATGTCTGTCTGCA 0 55 1 AAAAATGTCTGTCTGCAGGGCTCTGTGTCTTGTGTGGTGGTCCCTGT 0 85 1 CCCTCGAAACGCAAAGAAGGCCAAGACCGCGCCATTGTAGCATAAGC 1 37 0 TGGCCTTCTTTGCGTTTCGAGGGAGGGTAGACTGAAGCGCAGGCGGG 1 61 1 TAGACTGAAGCGCAGGCGGGCAAAGGCGTTTGCGCGACAATGGGGCT 1 88 1 GCGTTTGCGCGACAATGGGGCTGGGCGTGGTCCGCACGTGTTCTGCG 1 113 1 CGTGTTCTGCGCCCGGTTGGGAGAAACTTCGAAGGGGCGCAC 1 149 1 GCTACCATTACACAACCAGGGAGGGAGGCCCAGGCTAGTACGACACG 2 29 1 TACCCGGTACCTCCACTTGACCGACGCAGACTGGCAGCTGCCATCAG 2 122 1 TTTGCCGGAATGCGCGTGTGCTGTGGGGCTGCTGATGGCAGCTGCCA 2 153 0 ACAGCACACGCGCATTCCGGCAAAGACACACAACTGCACATTGCCGA 2 176 1 TCCAGTCAGTAGCGCTATTGCAAAGCGCGCCTGGCTGCGATACAAGG 2 244 1 AGTAGTACAAAAGGGTGCGCCAGTCTACACGTTCTTTGTGT 3 4 1 CGCGTTGCTTGTCACCGCTGCAGGCAGCTCTGCACGC 4 17 1 * * *** * * * * * MAP Score: 7.75909 Motif 9 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAGTAT 0 7 1 TGATGGACTTTGAATTCTCAATTGCGGCGGGCGTAAAAATG 0 51 1 CACCACACAAGACACAGAGCCCTGCAGACAGACATTTTTAC 0 83 0 TTCGAGGGAGGGTAGACTGAAGCGCAGGCGGGCAAAGGCGT 1 76 1 AAAGGCGTTTGCGCGACAATGGGGCTGGGCGTGGTCCGCAC 1 109 1 TGGGCGTGGTCCGCACGTGTTCTGCGCCCGGTTGGGAGAAA 1 134 1 TGCGGTGCTACCATTACACAACCAGGGAGGGAGGCCCAGGC 2 23 1 CTCCACTTGACCGACGCAGACTGGCAGCTGCCATCAGCAGC 2 132 1 CAGCTGCCATCAGCAGCCCCACAGCACACGCGCATTCCGGC 2 156 1 CTGCACATTGCCGATACAATTGTGCAGTCGCTCCTTCCAGT 2 209 1 AGTCAGTAGCGCTATTGCAAAGCGCGCCTGGCTGCGATACA 2 247 1 GCGCCGCGTTGCTTGTCACCGCTGCAGGCAGCTCTGCACGC 4 13 1 ** * **** *** MAP Score: 3.42569 Motif 10 GATGAAACCTCCTCCTGAGTGCGGGCACAGGG 0 8 1 TTTGAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 59 1 AAGACACAGAGCCCTGCAGACAGACATTTTTACG 0 82 0 CGCCTTTGCCCGCCTGCGCTTCAGTCTACCCTCC 1 82 0 GGGCGCAGAACACGTGCGGACCACGCCCAGCCCC 1 129 0 CGCACGTGTTCTGCGCCCGGTTGGGAGAAACTTC 1 145 1 ACTTACCCGGTACCTCCACTTGACCGACGCAGAC 2 119 1 CGCAGACTGGCAGCTGCCATCAGCAGCCCCACAG 2 146 1 AGCCCCACAGCACACGCGCATTCCGGCAAAGACA 2 170 1 CAAAGACACACAACTGCACATTGCCGATACAATT 2 196 1 TACAATTGTGCAGTCGCTCCTTCCAGTCAGTAGC 2 223 1 CTATTGCAAAGCGCGCCTGGCTGCGATACAAGGA 2 258 1 CCCGCGCCGCGTTGCTTGTCACCGC 4 1 1 TTGCTTGTCACCGCTGCAGGCAGCTCTGCACGC 4 21 1 * ***** * * ** MAP Score: 1.05186 Motif 11 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTA 0 7 1 GTCTTGTGTGGTGGTCCCTGTTTTGTGGGTAGGTTTG 0 111 1 ATGGCGCGGTCTTGGCCTTCTTTGCGTTTCGAGGGAG 1 49 1 AAACGCCTTTGCCCGCCTGCGCTTCAGTCTACCCTCC 1 82 0 CGCACGTGTTCTGCGCCCGGTTGGGAGAAACTTCGAA 1 145 1 ACTAGCCTGGGCCTCCCTCCCTGGTTGTGTAATGGTA 2 31 0 AACTTACCCGGTACCTCCACTTGACCGACGCAGACTG 2 118 1 TGTGGGGCTGCTGATGGCAGCTGCCAGTCTGCGTCGG 2 142 0 CAGCCCCACAGCACACGCGCATTCCGGCAAAGACACA 2 169 1 ATACAATTGTGCAGTCGCTCCTTCCAGTCAGTAGCGC 2 222 1 AGCGCTATTGCAAAGCGCGCCTGGCTGCGATACAAGG 2 254 1 CCCGCGCCGCGTTGCTTGTCACCGCTG 4 0 1 ** *** * ** * * MAP Score: 0.827087