AlignACE 3.0 10/20/99 AlignACE2 -i CT/CT_profile002_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944243297 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 mutY 46 A/G-specific Adenine Glycosylase #1 kdsB 300 CMP-2-keto-3-deoxyoctulosonic acid synthetase #2 proS 200 Prolyl tRNA Synthetase #3 yaeS 300 YaeS family #4 ndk 159 Nucleoside-2-P Kinase #5 ruvC 107 Crossover Junction Endonuclease #6 CT503 286 hypothetical protein #7 gapA 43 Glyceraldehyde-3-P Dehydrogenase #8 rs11 21 S11 Ribosomal Protein #9 rs13 55 S13 Ribosomal Protein #10 secY 22 Translocase #11 rl18 21 L18 Ribosomal Protein #12 rl6 27 L6 Ribosomal Protein #13 rl16 32 L16 Ribosomal Protein #14 rl2 23 L2 Ribosomal Protein #15 rl3 300 L3 Ribosomal Protein #16 kdsA 300 KDO Synthetase #17 thdF 266 Thiophene/Furan Oxidation Protein #18 pnp 28 Polyribonucleotide Nucleotidyltransferase #19 rs15 156 S15 Ribosomal Protein Motif 1 CCCACCTAAGAAGCAAAACTTCTTATACAGTAGG 1 256 0 TCTTAAAATTAATTTAAGCGTTTTTGCAAATTTT 2 24 0 CAAAACTTCAAATATAAAAATTTTTATTTTGCTG 3 43 1 TAGTAAAGCCTTTTGGGAGATTCC 5 0 1 TTCTTGAGACAATAATACCTTTTTGATTTATAGA 6 228 1 AAAATAACAATTTTTGACCTAAGA 9 0 1 CCCTTAAAGTAATATAAGCATCTTAGGTCAAAAA 9 20 0 TCTTAGCGTCAAGAAAAATCTCTTGTGTGGATGT 15 100 1 ATTTCCTCTTTAAAAAACCTTCTTCCTAGGATTT 16 156 1 TTGCTCTTCCTATAGAAGCCTTTTACACACAAAG 17 39 1 GTTTTTGAGAAAGAGAAACTTCTTTATAGTTCTT 17 77 0 CTTTCTCAAAAACACAAACCCTTTCAGGATACCG 17 98 1 CCGAACTCCTAAAAAAAGCTTCTTTATTTAAAAA 17 129 1 TTCTTAATTCAAGAAAACCTTTTTTATCGGGTTA 19 21 0 CTGCACAGAGAAAAAAAACTTCTTACTCTAGCAA 19 129 1 ** * ** * **** MAP Score: 18.5896 Motif 2 CTCATAGGCTCTCTTCGTTCCTATATTCGA 1 64 1 CAATATAAAGCACTTCCTTCCCT 2 187 1 GAGTCGCCACCTCTTCCTACTAGCGATATG 3 188 1 AAATCAGCCTCATTTCGTTTCTATGGAAGA 4 82 1 CGTTAGTAACCCTTTCCTTTATTGTGTAAA 5 40 1 CTTTAGGGTCCTCGTCGTTTTTGCTCAGAT 6 107 1 GTTATTCTTCTCTTCCTTCTTTA 14 4 0 TCTGGAAGCACTCTTCCTTCTTCTATTCCT 16 61 1 GGCTGATTTGCTCTTCCTATAGAAGCCTTT 17 32 1 AAAGTATAATCATTTCCTTTTCAGCACTTT 17 223 1 TACCCCATTTCGTTTTTAGGACAAC 18 5 1 ********** MAP Score: 14.6762 Motif 3 AACAATATAAAGCACTTCCTTCCCT 2 185 1 CAGAGTCGCCACCTCTTCCTACTAGCGATATGG 3 186 1 TCCTTTTTGCCTCTCTTTCTCCTGTGCCATAGC 4 130 0 TGTTCTGAGCACATCTTTTTTCTCTGGTTCTTG 6 201 1 TGAGACAATAATACCTTTTTGATTTATAGATGA 6 232 1 AACACTCTCTCCTAAAAATTA 8 8 0 GTTATTCTTCTCTTCCTTCTTTA 14 3 0 TTTCTGGAAGCACTCTTCCTTCTTCTATTCCTT 16 59 1 CCTCTTTAAAAAACCTTCTTCCTAGGATTTTAT 16 160 1 ACTCCTAAAAAAAGCTTCTTTATTTAAAAATTT 17 133 1 TTCTTCGATTAGCCCTTCTTGCTTAGAAAGATC 17 185 1 TAATTCAAGAAAACCTTTTTTATCGGGTTATAG 19 18 0 ACAGAGAAAAAAAACTTCTTACTCTAGCAAAAG 19 133 1 * * ****** ** MAP Score: 12.4855 Motif 4 CATCCCTGCTCTGAGTTCTAAGAACCCTCTACCAGAG 3 154 1 CCATATCCCCCTCATTTCTAAGAAACCATCCCCATAT 3 213 0 AGAGATTTTTCTTGACGCTAAGAAATCCCACACCAAA 15 86 0 TCGATTAGCCCTTCTTGCTTAGAAAGATCATCCAAAA 17 189 1 GGAGATTTGGCTGTTCTCTGAGAATTATAGGGATCCA 3 247 0 AAAGAAACATCAAGTTATTAAGAAATAAAGAATCTGA 2 66 1 TAACTTAGCTCAGCATTTTCAGAAATACCTGCGAAAG 4 22 0 GGCTGATTTGCTCTTCCTATAGAAGCCTTTTACACAC 17 32 1 AGTTTTTTTTCTCTGTGCAGAGAAATATAAGATGTCG 19 112 0 ATACATTATCCAATAAGTTAAGAAAGCTAGTAGCTCT 1 128 1 CTTTTACACACAAAGCATAAAGAACTATAAAGAAGTT 17 58 1 ATCAAGTCTCCTCTGAATAGAGAAACCAGTTCTTCTA 3 95 0 TGATTTTCAACACAATTGTAAGAAAACTATAACTTAG 4 51 0 GATGCTTAAAATAGATTTTTAGAAGAACTGGTTTCTC 3 76 1 AAACGCTTAAATTAATTTTAAGAAACAAACAAAAGAA 2 35 1 GTCAGCTGAGAAGATCGTTAAGAACTCTGACTAAAGG 16 241 1 TCATACACTTCTAGATATTTACAAGCCTTCTCATAGG 1 35 1 ATTATTGTCTCAAGAACCAGAGAAAAAAGATGTGCTC 6 207 0 TATATTTGTGCAAATTTTACACAATAAAGGAAAGGGT 5 48 0 ** * ** **** * MAP Score: 11.3754 Motif 5 CCACCTAAGAAGCAAAACTTCTTATACAGTA 1 258 0 CAAAATTTGCAAAAACGCTTAAATTAATTTT 2 23 1 AGATTGATCTAGAAACACTCCTATGCTAAGA 2 139 1 CAACCATCAAAACAAAACTTCAAATATAAAA 3 31 1 TCTGAGTTCTAAGAACCCTCTACCAGAGTCG 3 163 1 CCTCATTTCTAAGAAACCATCCCCATATCGC 3 210 0 TAGTAAAGCCTTTTGGGAGATT 5 1 1 TGATTTCGTTAGTAACCCTTTCCTTTATTGT 5 34 1 GCTTCCTTGGAAGAAAACTTATAACGCT 15 7 0 GTTTTCTTCCAAGGAAGCTCCACTAGTAAAA 15 20 1 AAGCTCCACTAGTAAAACCTAGAACGATTTT 15 34 1 CACACAACTTGACAACGCTTCACAGACCGCC 15 264 0 AAGGAAACACTTCCATAGTGCTG 16 2 1 TTTCCTCTTTAAAAAACCTTCTTCCTAGGAT 16 157 1 TGATTGGTACGAGAAACCTTATAAAATCCTA 16 182 0 TTTTTGAGAAAGAGAAACTTCTTTATAGTTC 17 79 0 CGAACTCCTAAAAAAAGCTTCTTTATTTAAA 17 130 1 TCTTAATTCAAGAAAACCTTTTTTATCGGGT 19 23 0 TTTCTAAATCAAAAACCCCTCATAACATACT 19 67 1 TGCACAGAGAAAAAAAACTTCTTACTCTAGC 19 130 1 ** ******** MAP Score: 10.6876 Motif 6 ACGCTTAAATTAATTTTAAGAAACAAACAAAAG 2 37 1 TCCCTGCTCTGAGTTCTAAGAACCCTCTACCAG 3 156 1 ATATGGGGATGGTTTCTTAGAAATGAGGGGGAT 3 213 1 TGGATCCCTATAATTCTCAGAGAACAGCCAAAT 3 247 1 ACTTAGCTCAGCATTTTCAGAAATACCTGCGAA 4 24 0 GAAATGAGGCTGATTTTCAACACAATTGTAAGA 4 65 0 GACAAGACGCGAGTGTTAAGAAAGGC 5 91 1 AGTTCATTGCTTTTTTTTAGAACTTTAACATAC 6 12 1 AGTTCGAGTCTTGTTCTGAGCACATCTTTTTTC 6 190 1 TGATGCTAATTTTTCGAAAACACTGACTA 7 6 1 AAAGGGTTTGTGTTTTTGAGAAAGAGAAACTTC 17 89 0 TTTTGGATGATCTTTCTAAGCAAGAAGGGCTAA 17 193 0 TATAATCATTTCCTTTTCAGCACTTTATTTAGC 17 227 1 TACCCCATTTCGTTTTTAGGACAACTCC 18 9 1 CGACATCTTATATTTCTCTGCACAGAGAAAAAA 19 112 1 * **** ***** MAP Score: 8.95989 Motif 7 AGATATTTACAAGCCTTCTCATAGGCTCTCTT 1 47 1 CTTGATTGTTAACGATCTCCTTGTTAGGATGG 1 174 1 GGCCCTTACCAAACATATTCATATGACTAGGG 1 226 0 AAACAATATAAAGCACTTCCTTCCCT 2 184 1 ATTTCTAAGAAACCATCCCCATATCGCTAGTA 3 205 0 TTGTGTTGAAAATCAGCCTCATTTCGTTTCTA 4 73 1 TTTCGTTAGTAACCCTTTCCTTTATTGTGTAA 5 37 1 AAGGAAACACTTCCATAGTGCTGGAA 16 4 1 CCTTGCCCATAACCCATTCCTTGGATTCACTA 16 125 1 TTCCTCTTTAAAAAACCTTCTTCCTAGGATTT 16 158 1 CACTCTAAAAAAGGATACCCTTTT 16 286 1 AGGAAGAGCAAATCAGCCGCTTGCAGAGCAGG 17 18 0 GAACTCCTAAAAAAAGCTTCTTTATTTAAAAA 17 131 1 CCAAAAGTATAATCATTTCCTTTTCAGCACTT 17 220 1 TTCTAAATCAAAAACCCCTCATAACATACTAC 19 68 1 GCACAGAGAAAAAAAACTTCTTACTCTAGCAA 19 131 1 ** ** ****** MAP Score: 8.82509 Motif 8 TTTAAGAAACAAACAAAAGAAACATCAAGT 2 51 1 AGTTATTAAGAAATAAAGAATCTGAACTAG 2 78 1 ACAAAACTTCAAATATAAAAATTTTTATTT 3 42 1 AAATCAGGGATCCTTTCGCA 4 0 1 GTTACTAACGAAATCAGGAATCTCCCAAAA 5 20 0 AAATTTGCACAAATATAGAAAATGACAAGA 5 68 1 CCTCATCTATAAATCAAAAAGGTATTATTG 6 237 0 CAAATTAAAAGATTAGGACGGT 12 2 1 TCCACTAGTAAAACCTAGAACGATTTTTCA 15 38 1 GGAAATAGTGAATCCAAGGAATGGGTTATG 16 132 0 AACCTTATAAAATCCTAGGAAGAAGGTTTT 16 169 0 AAAAATTTTTAAATAAAGAAGCTTTTTTTA 17 138 0 ACTAATTCTTAATTCAAGAAAACCTTTTTT 19 30 0 GATTTTTTCTAAATCAAAAACCCCTCATAA 19 62 1 CTGTGCAGAGAAATATAAGATGTCGATTAG 19 107 0 ********** MAP Score: 7.23229 Motif 9 GTTAACGATCTCCTTGTTAGGATGGTCGGGTT 1 181 1 ATAAGAAGTTTTGCTTCTTAGGTGGGACGTCA 1 264 1 TATATTTGAAGTTTTGTTTTGATGGTTGCGGT 3 27 0 ATGGGTACCATCCCTGCTCTGAGTTCTAAGAA 3 146 1 CATATCCCCCTCATTTCTAAGAAACCATCCCC 3 217 0 CAGCCTCATTTCGTTTCTATGGAAGAGATGAC 4 86 1 GTCCTCGTCGTTTTTGCTCAGATGGTGGAATG 6 114 1 GCAAGTTCGAGTCTTGTTCTGAGCACATCTTT 6 187 1 TGAGCACATCTTTTTTCTCTGGTTCTTGAGAC 6 206 1 TTTTCAGGCTTTGTTTTTGCGATTTTTGGTGT 15 62 1 TTAAAAAACCTTCTTCCTAGGATTTTATAAGG 16 165 1 AAAAGGGTATCCTTTTTTAGAGTGGAATTGT 16 279 0 GAAAGGGTTTGTGTTTTTGAGAAAGAGAAACT 17 91 0 AAATAAAGAAGCTTTTTTTAGGAGTTCGGTAT 17 126 0 TGAACAATCCGCCTTTCTTCGATTAGCCCTTC 17 171 1 CGATTAGCCCTTCTTGCTTAGAAAGATCATCC 17 190 1 TACCCCATTTCGTTTTTAGGACAACTCC 18 9 1 ******** ** MAP Score: 7.12051 Motif 10 TATATTCGACACCTCCCGCGTTTCATTCGTGAAA 1 85 1 CCAAACTAAGCTGCTAAACCGCAACCATCAAA 3 8 1 AGGGATCCATATCCCCCTCATTTCTAAGAAACCA 3 222 0 ATTCTCAGAGAACAGCCAAATCTCCAGCCACTAT 3 259 1 TGTGTTGAAAATCAGCCTCATTTCGTTTCTATGG 4 74 1 GAAATCAGGAATCTCCCAAAAGGCTTTACTA 5 7 0 CGCTTCACAGACCGCCCCCGGTGCCTAATTACAC 15 246 0 TGCTTGTTCAAACTGCTAATCCGCCGAATCCTTG 16 96 1 GCTTATCTCCTGCTCTGCAAGCGGCTGA 17 4 1 CTGCTCTGCAAGCGGCTGATTTGCTCTTCCTATA 17 19 1 TATATGAACAATCCGCCTTTCTTCGATTAGCCCT 17 167 1 GGGTAGCAGCCTTTAGGCTAAATAAAGT 17 248 0 * * *** ** *** MAP Score: 5.37357 Motif 11 ATAAGAAGTTTTGCTTCTTAGGTGGGACGTC 1 264 1 TTTCTTTTGTTTGTTTCTTAAAATTAATTTA 2 42 0 TTCAGATTCTTTATTTCTTAATAACTTGATG 2 73 0 TTTTATTTTGCTGATGCTTAAAATAGATTTT 3 64 1 TTAGAAGAACTGGTTTCTCTATTCAGAGGAG 3 94 1 GATATGGGGATGGTTTCTTAGAAATGAGGGG 3 212 1 CAGCCTCATTTCGTTTCTATGGAAGAGATGA 4 86 1 GTCCTCGTCGTTTTTGCTCAGATGGTGGAAT 6 114 1 TGAGCACATCTTTTTTCTCTGGTTCTTGAGA 6 206 1 TATTCTTCTCTTCCTTCTTTA 14 0 0 TCGCCGCCTTTGTTTGCTTTAAGGAGCCGCG 15 158 1 TAAGGAGCCGCGTTTTCTTTGTCGTGGAAAT 15 177 1 GCTTATCTCCTGCTCTGCAAGCGGCTG 17 6 1 TTTATAGTTCTTTATGCTTTGTGTGTAAAAG 17 58 0 AAAGAAGTTTCTCTTTCTCAAAAACACAAAC 17 86 1 CGATTAGCCCTTCTTGCTTAGAAAGATCATC 17 190 1 GTAAGAAGTTTTTTTTCTCTGTGCAGAGAAA 19 124 0 ** ******** MAP Score: 3.84085 Motif 12 CGAATGAAACGCGGGAGGTGTCGAATATAGGAACG 1 79 0 TTGTTAGGATGGTCGGGTTCTGTGTACTAGATCCC 1 194 1 CTAGCGATATGGGGATGGTTTCTTAGAAATGAGGG 3 207 1 TCTTAGAAATGAGGGGGATATGGATCCCTATAATT 3 227 1 TTCTATAGTGGCTGGAGATTTGGCTGTTCTCTGAG 3 262 0 TGACTCGCTTGTGCGTGCTATGGCACAGGAGAAAG 4 114 1 TTTTTGCTCAGATGGTGGAATGGTAGACACTAGGG 6 124 1 GCGATTTTTGGTGTGGGATTTCTTAGCGTCAAGAA 15 80 1 ATTAGGCACCGGGGGCGGTCTGTGAAGCGTTGTCA 15 251 1 * *** * * *** * MAP Score: 2.73566