AlignACE 3.0 10/20/99 AlignACE2 -i TP/TP_operons030_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944240036 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 ATTGCAAAGCGCGCCTGGCTGCGATACAAGG 2 260 1 CACGTGTTCTGCGCCCGGTTGGGAGAAACTT 1 147 1 CCCGCGCCGCGTTGCTTGTCACCG 4 3 1 CACAGCACACGCGCATTCCGGCAAAGACACA 2 175 1 CTGAGTGCGGGCACAGGGTAGTATACTTGAT 0 24 1 GCTGCTGATGGCAGCTGCCAGTCTGCGTCGG 2 142 0 TTGTGCAGTCGCTCCTTCCAGTCAGTAGCGC 2 228 1 ACACACAACTGCACATTGCCGATACAATTGT 2 201 1 GTAGACTGAAGCGCAGGCGGGCAAAGGCGTT 1 87 1 TGCTACAATGGCGCGGTCTTGGCCTTCTTTG 1 42 1 ACAAGACACAGAGCCCTGCAGACAGACATTT 0 87 0 GCGTGCAGAGCTGCCTGCAGCGGTGACAAG 4 24 0 GTGCGCCCCTTCGAAGTTTCTCC 1 168 0 AGGGAGGGAGGCCCAGGCTAGTACGACACGT 2 46 1 GTAGACTGGCGCACCCTTTTGTACTACT 3 7 0 ATTCTCAATTGCGGCGGGCGTAAAAATGTCT 0 64 1 TGGTAGCACCGCAGATTCTGGTTCTG 2 5 0 CGACAATGGGGCTGGGCGTGGTCCGCACGTG 1 122 1 ********* * MAP Score: 25.1223 Motif 3 GTAGACTGAAGCGCAGGCGGGCAAAGGCGTTT 1 87 1 GCGTGCAGAGCTGCCTGCAGCGGT 4 30 0 GAATGCGCGTGTGCTGTGGGGCTGCTGATGGC 2 161 0 CCCGCGCCGCGTTGCTTGTCACCGC 4 3 1 CACAGCACACGCGCATTCCGGCAAAGACACAC 2 175 1 ATTGCAAAGCGCGCCTGGCTGCGATACAAGGA 2 260 1 GTGCGCCCCTTCGAAGTTTCTC 1 169 0 CACAAAGAACGTGTAGACTGGCGCACCCTTTT 3 18 0 TGGTCCGCACGTGTTCTGCGCCCGGTTGGGAG 1 140 1 TCTGTGTCTTGTGTGGTGGTCCCTGTTTTGTG 0 106 1 CACTTGACCGACGCAGACTGGCAGCTGCCATC 2 135 1 CGATACAATTGTGCAGTCGCTCCTTCCAGTCA 2 220 1 ACGGAGTAAGTGTTCTCCTCCTTGTATCGCA 2 279 0 GTACTAGCCTGGGCCTCCCTCCCTGGTTGTGT 2 38 0 TGCTACAATGGCGCGGTCTTGGCCTTCTTTGC 1 42 1 TCTGTCTGCAGGGCTCTGTGTCTTGTGTGGTG 0 92 1 CGTGCGGACCACGCCCAGCCCCATTGTCGCGC 1 119 0 GCAGAGCTGCCTGCAGCGGTGACAAGCAACGC 4 18 0 AGACATTTTTACGCCCGCCGCAATTGAGAATT 0 63 0 TCCTGAGTGCGGGCACAGGGTAGTATACTTGA 0 22 1 **** * ***** MAP Score: 24.5984 Motif 4 TTTGAATTCTCAATTGCGGCGGGCGTAAAAATG 0 59 1 AAATGTCTGTCTGCAGGGCTCTGTGTCTTGTGT 0 87 1 GCTTATGCTACAATGGCGCGGTCTTGGCCTTCT 1 37 1 GGAGGGTAGACTGAAGCGCAGGCGGGCAAAGGC 1 82 1 GTTTGCGCGACAATGGGGCTGGGCGTGGTCCGC 1 115 1 AAGTTTCTCCCAACCGGGCGCAGAACACGTGCG 1 145 0 GGAGAAACTTCGAAGGGGCGCAC 1 168 1 TACCATTACACAACCAGGGAGGGAGGCCCAGGC 2 31 1 ATCAGCAGCCCCACAGCACACGCGCATTCCGGC 2 164 1 ATTGCCGATACAATTGTGCAGTCGCTCCTTCCA 2 215 1 CCTTGTATCGCAGCCAGGCGCGCTTTGCAATAG 2 258 0 AGTAGTACAAAAGGGTGCGCCAGTCTACAC 3 7 1 CGGTGACAAGCAACGCGGCGCGGG 4 1 0 GCAGAGCTGCCTGCAGCGGTGACAAGCAACGCG 4 17 0 CCGCTGCAGGCAGCTCTGCACGC 4 31 1 * ** **** *** MAP Score: 20.9445 Motif 5 GAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 62 1 AAATGTCTGTCTGCAGGGCTCTGTGTCTTGT 0 87 1 AAGGCCAAGACCGCGCCATTGTAGCATAAGC 1 37 0 TTGCCCGCCTGCGCTTCAGTCTACCCTCCCT 1 80 0 GACAATGGGGCTGGGCGTGGTCCGCACGTGT 1 123 1 TGGGCGTGGTCCGCACGTGTTCTGCGCCCGG 1 134 1 CGCACGTGTTCTGCGCCCGGTTGGGAGAAAC 1 145 1 GTGCGCCCCTTCGAAGTTTCT 1 170 0 GAACCAGAATCTGCGGTGCTACCATTACACA 2 12 1 AGCTGCCAGTCTGCGTCGGTCAAGTGGAGGT 2 130 0 TGCTGTGGGGCTGCTGATGGCAGCTGCCAGT 2 151 0 GAATGCGCGTGTGCTGTGGGGCTGCTGATGG 2 162 0 TATCGGCAATGTGCAGTTGTGTGTCTTTGCC 2 194 0 CGATACAATTGTGCAGTCGCTCCTTCCAGTC 2 220 1 TCGCAGCCAGGCGCGCTTTGCAATAGCGCTA 2 253 0 GTACAAAAGGGTGCGCCAGTCTACACGTTCT 3 14 1 CCCGCGCCGCGTTGCTTGTCAC 4 1 1 TTGCTTGTCACCGCTGCAGGCAGCTCTGCAC 4 21 1 ******* *** MAP Score: 9.65217 Motif 6 CCTGAGTGCGGGCACAGGGTAGTATACTTGAT 0 23 1 ATTCTCAATTGCGGCGGGCGTAAAAATGTCTG 0 64 1 TTGTGTGGTGGTCCCTGTTTTGTGGGTAGGTT 0 114 1 ATGCTACAATGGCGCGGTCTTGGCCTTCTTTG 1 41 1 GGTAGACTGAAGCGCAGGCGGGCAAAGGCGTT 1 86 1 GGCGGGCAAAGGCGTTTGCGCGACAATGGGGC 1 102 1 CGCGACAATGGGGCTGGGCGTGGTCCGCACGT 1 120 1 CACGTGTTCTGCGCCCGGTTGGGAGAAACTTC 1 147 1 CAGGGAGGGAGGCCCAGGCTAGTACGACACGT 2 45 1 ATGCGCGTGTGCTGTGGGGCTGCTGATGGCAG 2 159 0 TTGCAATAGCGCTACTGACTGGAAGGAGCGAC 2 235 0 ATTGCAAAGCGCGCCTGGCTGCGATACAAGGA 2 260 1 ACAAAAGGGTGCGCCAGTCTACACGTTCTTTG 3 16 1 GCTTGTCACCGCTGCAGGCAGCTCTGCACGC 4 23 1 ***** **** * MAP Score: 7.37006 Motif 7 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAGT 0 9 1 GACTTTGAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 56 1 GCGTAAAAATGTCTGTCTGCAGGGCTCTGTGTCTTGT 0 81 1 GGGCTCTGTGTCTTGTGTGGTGGTCCCTGTTTTGTGG 0 102 1 ACGCGCTTATGCTACAATGGCGCGGTCTTGGCCTTCT 1 33 1 CGAGGGAGGGTAGACTGAAGCGCAGGCGGGCAAAGGC 1 78 1 ACCACGCCCAGCCCCATTGTCGCGCAAACGCCTTTGC 1 107 0 GGCGTGGTCCGCACGTGTTCTGCGCCCGGTTGGGAGA 1 136 1 GTTGGGAGAAACTTCGAAGGGGCGCAC 1 164 1 CCATTACACAACCAGGGAGGGAGGCCCAGGCTAGTAC 2 33 1 CGGTACCTCCACTTGACCGACGCAGACTGGCAGCTGC 2 126 1 GCTGCCATCAGCAGCCCCACAGCACACGCGCATTCCG 2 158 1 AGTCGCTCCTTCCAGTCAGTAGCGCTATTGCAAAGCG 2 234 1 TCTCCTCCTTGTATCGCAGCCAGGCGCGCTTTGCAAT 2 260 0 GCCGCGTTGCTTGTCACCGCTGCAGGCAGCTCTGCAC 4 15 1 ** * ** **** * MAP Score: 6.02393 Motif 8 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAG 0 3 1 GAGGGTAGACTGAAGCGCAGGCGGGCAAAGGCGTTTGCGCGA 1 83 1 GGGCAAAGGCGTTTGCGCGACAATGGGGCTGGGCGTGGTCCG 1 105 1 ATGGGGCTGGGCGTGGTCCGCACGTGTTCTGCGCCCGGTTGG 1 127 1 CAACCAGGGAGGGAGGCCCAGGCTAGTACGACACGTATTTTC 2 41 1 AAACTTACCCGGTACCTCCACTTGACCGACGCAGACTGGCAG 2 117 1 GCGTGTGCTGTGGGGCTGCTGATGGCAGCTGCCAGTCTGCGT 2 145 0 CAATTGTGCAGTCGCTCCTTCCAGTCAGTAGCGCTATTGCAA 2 225 1 TTGTATCGCAGCCAGGCGCGCTTTGCAATAGCGCTACTGACT 2 247 0 TAGTACAAAAGGGTGCGCCAGTCTACACGTTCTTTGTGTT 3 12 1 GCGTGCAGAGCTGCCTGCAGCGGTGACAAGCAACGCGGCGC 4 13 0 * ** ** * * * ** MAP Score: 4.07525 Motif 9 GATGAAACCTCCTCCTGAGTGCGGGCACAGGGTAGT 0 9 1 GACTTTGAATTCTCAATTGCGGCGGGCGTAAAAATGT 0 56 1 GGGCTCTGTGTCTTGTGTGGTGGTCCCTGTTTTGTGG 0 102 1 ACGCGCTTATGCTACAATGGCGCGGTCTTGGCCTTCT 1 33 1 GGCCTTCTTTGCGTTTCGAGGGAGGGTAGACTGAAGC 1 62 1 AGACTGAAGCGCAGGCGGGCAAAGGCGTTTGCGCGAC 1 89 1 AGGCGTTTGCGCGACAATGGGGCTGGGCGTGGTCCGC 1 111 1 CCAACCGGGCGCAGAACACGTGCGGACCACGCCCAGC 1 132 0 GTTGGGAGAAACTTCGAAGGGGCGCAC 1 164 1 ACCATTACACAACCAGGGAGGGAGGCCCAGGCTAGTA 2 32 1 CTTGACCGACGCAGACTGGCAGCTGCCATCAGCAGCC 2 137 1 ATGCGCGTGTGCTGTGGGGCTGCTGATGGCAGCTGCC 2 154 0 CCAGTCAGTAGCGCTATTGCAAAGCGCGCCTGGCTGC 2 245 1 AGTAGTACAAAAGGGTGCGCCAGTCTACACGT 3 5 1 ** *** **** * MAP Score: 3.71532 Motif 10 AACCTCCTCCTGAGTGCGGGCACAGGGTAGT 0 15 1 ATTCTCAATTGCGGCGGGCGTAAAAATGTCT 0 64 1 ACCACACAAGACACAGAGCCCTGCAGACAGA 0 92 0 TGTGTCTTGTGTGGTGGTCCCTGTTTTGTGG 0 108 1 AAGAAGGCCAAGACCGCGCCATTGTAGCATA 1 40 0 CGCGACAATGGGGCTGGGCGTGGTCCGCACG 1 120 1 GTCCGCACGTGTTCTGCGCCCGGTTGGGAGA 1 142 1 GGAGAAACTTCGAAGGGGCGCAC 1 168 1 ACCAGAATCTGCGGTGCTACCATTACACAAC 2 14 1 ACACAACCAGGGAGGGAGGCCCAGGCTAGTA 2 38 1 CGACGCAGACTGGCAGCTGCCATCAGCAGCC 2 143 1 GTGTGCTGTGGGGCTGCTGATGGCAGCTGCC 2 154 0 TGTCTTTGCCGGAATGCGCGTGTGCTGTGGG 2 173 0 TAGCGCTATTGCAAAGCGCGCCTGGCTGCGA 2 253 1 GTAGTACAAAAGGGTGCGCCAGTCTACACGT 3 11 1 GTGACAAGCAACGCGGCGCGGG 4 1 0 GCGTGCAGAGCTGCCTGCAGCGGTG 4 29 0 **** ****** MAP Score: 3.38608 Motif 11 CAAGTATACTACCCTGTGCCCGCACTCAGGA 0 22 0 ATTCTCAATTGCGGCGGGCGTAAAAATGTCT 0 64 1 TCTGTCTGCAGGGCTCTGTGTCTTGTGTGGT 0 92 1 ACAATGGCGCGGTCTTGGCCTTCTTTGCGTT 1 46 1 GGCGGGCAAAGGCGTTTGCGCGACAATGGGG 1 102 1 CGCGACAATGGGGCTGGGCGTGGTCCGCACG 1 120 1 GTCCGCACGTGTTCTGCGCCCGGTTGGGAGA 1 142 1 GTGTCGTACTAGCCTGGGCCTCCCTCCCTGG 2 44 0 ATGCGCGTGTGCTGTGGGGCTGCTGATGGCA 2 160 0 TGTCTTTGCCGGAATGCGCGTGTGCTGTGGG 2 173 0 GCAATGTGCAGTTGTGTGTCTTTGCCGGAAT 2 189 0 CGGAGTAAGTGTTCTCCTCCTTGTATCGCAG 2 278 0 ** ******** MAP Score: 3.30741 Motif 12 TACTTGATGGACTTTGAATTCTCAATTGCGGCGGGCGTAAA 0 47 1 GTCTGTCTGCAGGGCTCTGTGTCTTGTGTGGTGGTCCCTGT 0 91 1 GGCCAAGACCGCGCCATTGTAGCATAAGCGCGTGAAATCGT 1 25 0 TTGCGTTTCGAGGGAGGGTAGACTGAAGCGCAGGCGGGCAA 1 70 1 CTGAAGCGCAGGCGGGCAAAGGCGTTTGCGCGACAATGGGG 1 92 1 TCTCCCAACCGGGCGCAGAACACGTGCGGACCACGCCCAGC 1 132 0 CGCCCGGTTGGGAGAAACTTCGAAGGGGCGCAC 1 158 1 CTTACCCGGTACCTCCACTTGACCGACGCAGACTGGCAGCT 2 120 1 ACCGACGCAGACTGGCAGCTGCCATCAGCAGCCCCACAGCA 2 141 1 CGCGCATTCCGGCAAAGACACACAACTGCACATTGCCGATA 2 184 1 TTGTGCAGTCGCTCCTTCCAGTCAGTAGCGCTATTGCAAAG 2 228 1 CCCGCGCCGCGTTGCTTGTCACCGCTGCAGGCAGCTCTGC 4 9 1 ** ** * * **** MAP Score: 3.15099