AlignACE 3.0 10/20/99 AlignACE2 -i CT/CT_profile004_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944243424 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 rl33 300 L33 Ribosomal Protein #1 CT151 35 hypothetical protein #2 kdsB 300 CMP-2-keto-3-deoxyoctulosonic acid synthetase #3 leuS 196 Leucyl tRNA Synthetase #4 yrbH 31 GutQ/KpsF Family Sugar-P Isomerase #5 sucB_2 245 Dihydrolipoamide Succinyltransferase #6 ribC_CT406 392 ribC: Riboflavin Synthase, CT406: hypothetical protein #7 CT409 101 Amino acid permease #8 pcnB_1 214 PolyA Polymerase #9 lpxB 60 Lipid A Disaccharide Synthase #10 lpxC 100 UDP-3-O-Acyl GlcNAc Deacetylase #11 cutE 63 Apolipoprotein N-Acetyltransferase #12 yciA 135 Acyl-CoA Thioester Hydrolase #13 CT538 300 hypothetical protein #14 exbB 152 polysaccharide transporter Motif 1 TCTCTCCAGGAAAGCTCTTCCTATAATAGAAA 8 128 0 TCCTCCAAGGAATTTCTTGATTTTCTTC 12 6 1 TAAAGGGGCTCCCTTACTAGCTTA 11 49 0 GTATAGAACCAAGATCCTTTTTGGTATGTAAT 14 79 0 GTAACTTCTAAGGGGATTCTTTTTCTCTCAT 11 9 1 GTAAGAGAAGAAGGATTTTTTTATCAAAAAAT 0 72 1 AAACCCTCAAAAGGCATTTTTTATCTGTAAAA 5 149 1 TCTTTCTTTCAAGGATCTCTCTACCAAACAAA 7 18 1 AGAGAACTCTAAAAGCCTTCTTGCTCAAGGAC 8 155 1 CAAAAAATTCTTTCTTTCAAGGATC 7 3 1 GACCATATATAAGGCACGTCTTTTTGATCATC 8 35 0 AAGACATTTTTTTAATATAGCG 4 0 1 TCTTCTTAGAAAGGTTTTCTCTACGGGCGGTC 6 230 1 TGTTATTTTTAAGGTTTTCTCTCCTTACAACC 3 160 0 ATATGGGCGGAAAGGCTTCCCTTTAGAAGGAG 13 218 1 ACCTAGTTCTAAAACACTTGCTATC 10 3 0 ACACGGTGAGAAAATGATTTTTTGATAAAAAA 0 88 0 ACTTCCTTGCAAAAGTATTTTTACAAAAAGCA 13 165 0 GGTTCTATACAAGAAATTTGTTAGGATCGTCT 14 101 1 GTCGAGCAAGAAAATCATTTCT 13 0 0 TCTTATTAAAAAAGATATTGCTAGAATTTAGG 0 146 1 CCTTTCTAAGAAGAGGTTCTTTTCAACACAAG 6 212 0 CCATCCTAACAAGGAGATCGTTAACAATCAAG 2 174 0 AAGATTGCTAAAAAGTATTGTTGTCACGACCT 6 349 1 CAAACAACAGAAGAGTTGTTTTTGTTTTTGCA 14 43 1 GCCAGGCAAAAAGAGTTGTTTTATCCAGTAAT 0 13 0 AATCACAATCAAGAATTGTGTTACTAGATCCC 6 93 0 AAAAATAATCAAGATCTGCTCTCGCATTTATT 0 222 0 **** ****** MAP Score: 20.5984 Motif 2 TAAGAGAAGAAGGATTTTTTTATCAAAAAAT 0 73 1 TTATCAAAAAATCATTTTCTCACCGTGTCTA 0 92 1 GGGCTGATTTAGCATTTTCTTGAGAAAAGGT 0 273 1 GAATGAACCTTTTCTCAAGAAAATGC 0 284 0 CGAATCCATCATCTTTTTTTTAATGCGATCC 3 55 0 TGTTATTTTTAAGGTTTTCTCTCCTTACAAC 3 161 0 TTTAACGAAGAGGGTTTTCTCTCTTCGTTTT 5 16 1 GTTTTCTCTCTTCGTTTTCTTTAAGGTTTAA 5 29 1 TTAAGGTTTAAGCGTCTTTTCTGTGGTTTCA 5 49 1 CCAGTTGATAATCTTCTTCTCATATTGAGTT 5 182 1 CACAAGACACAGGATTTTATCCATTAAAATA 6 187 0 TTCTAAGAAGAGGTTCTTTTCAACACAAGAC 6 210 0 TCTTCTTAGAAAGGTTTTCTCTACGGGCGGT 6 230 1 AAAAGTCTGGAGGATTTTGTCCTTGAGCAAG 8 174 0 CCCGTATATTATCCTTTTTTTTTTTTAGCAA 10 58 0 TCTAAGGGGATTCTTTTTCTCTCATCTTGAA 11 16 1 AAGGAATTTCTTGATTTTCTTCTATATCGAG 12 16 1 AGAAATGATTTTCTTGCTCGACATA 13 4 1 *** ******* MAP Score: 18.4204 Motif 3 TACTTTAGACACGGTGAGAAAATGATTTTT 0 98 0 GAATATAGGAACGAAGAGAGCCTATGAGAA 2 62 0 GATTCGCAGACTGGAGAGGACTTGATTTCG 3 80 1 AGGCGGTTGTAAGGAGAGAAAACCTTAAAA 3 156 1 AGATCTTTTAACGAAGAGGGTTTTCTCTCT 5 10 1 CTTAAAGAAAACGAAGAGAGAAAACCCTCT 5 24 0 CCGAGACCGCCCGTAGAGAAAACCTTTCTA 6 236 0 TTGATCAGATCCGGAGAGGGCTTTTTCGTG 6 306 1 AAGGAGAGAGAGTCATAAAG 8 0 1 AAGAGCTTTCCTGGAGAGAACTCTAAAAGC 8 141 1 GCTTACATTCAAGATGAGAGAAAAAGAATC 11 24 0 ATTTGCTAAACCGGAGAGAGTGTTGTGTTT 14 10 0 ********** MAP Score: 18.2523 Motif 4 CTAAAACGACAAATAATTATTTGATGCCAGGCAAA 0 35 0 ATTTTTTGATAAAAAAATCCTTCTTCTCTTACACC 0 69 0 CACGGTGAGAAAATGATTTTTTGATAAAAAAATCC 0 84 0 AAATTCTAGCAATATCTTTTTTAATAAGACTATAC 0 140 0 CTTGATTGTTAACGATCTCCTTGTTAGGATGGTCG 2 174 1 AAGACATTTTTTTAATATAGCGGTG 4 0 1 TATGTTACACTAAACATTTTTTGAAACCACAGAAA 5 66 0 TAAACCCTCAAAAGGCATTTTTTATCTGTAAAAGC 5 148 1 AAAATTCAAATATTAGATCCTTGTTTACTACGATA 6 24 1 TCCCCCAAGCTACCTCTTTCTTTCATTTCTGAAGG 6 62 0 GGGATCTAGTAACACAATTCTTGATTGTGATTTGT 6 93 1 CCTTTCTAAGAAGAGGTTCTTTTCAACACAAGACA 6 209 0 TCTCGGAGTATAATTATTTTTTGATTATAAGTAAC 6 260 1 CAAAAAATTCTTTCTTTCAAGGATCTCTC 7 4 1 TACCCTATATTATCTCTTTTTTCCTTTTTGTTTGG 7 41 0 TGCCCTTGTAAACGTAATTTTTTCTATTATAGGAA 8 108 1 AGAGAACTCTAAAAGCCTTCTTGCTCAAGGACAAA 8 155 1 TAGAACTAGGTAGTAATTTTTTGATATCGCTTGCT 10 24 1 CCCCGTATATTATCCTTTTTTTTTTTTAGCAAGCA 10 55 0 GTAACTTCTAAGGGGATTCTTTTTCTCTCATCTT 11 9 1 TCCTCCAAGGAATTTCTTGATTTTCTTCTAT 12 6 1 AGAAATGATTTTCTTGCTCGACATAGAA 13 3 1 GCTTAATGGCAAACTGATTCTTCTTTTAATCACCA 13 252 0 GTATAGAACCAAGATCCTTTTTGGTATGTAATGAA 14 76 0 AGACGATCCTAACAAATTTCTTGTATAGAACCAAG 14 98 0 ** ******* * MAP Score: 15.2966 Motif 5 TAAGAGAAGAAGGATTTTTTTATCAAAAAAT 0 73 1 CAACGTTATGAGGGTCTCTTTGAATAAATGC 0 200 1 GCCTTCTCATAGGCTCTCTTCGTTCCTATAT 2 59 1 GTTATTTTTAAGGTTTTCTCTCCTTACAACC 3 160 0 TTAACGAAGAGGGTTTTCTCTCTTCGTTTTC 5 17 1 AACCCTCAAAAGGCATTTTTTATCTGTAAAA 5 150 1 TTCTAAGAAGAGGTTCTTTTCAACACAAGAC 6 210 0 CTTCTTAGAAAGGTTTTCTCTACGGGCGGTC 6 231 1 CTTTCTTTCAAGGATCTCTCTACCAAACAAA 7 19 1 AAAAGTCTGGAGGATTTTGTCCTTGAGCAAG 8 174 0 GATAATATACGGGGTCTCTTTGTCAGGGTTT 10 76 1 TAACTTCTAAGGGGATTCTTTTTCTCTCATC 11 11 1 AGGATCGTCTAGGAACTCGTTGGTTAGGTCT 14 123 1 *** ******* MAP Score: 15.2841 Motif 6 TAGATATTTACAAGCCTTCTCATAGGCTCTC 2 46 1 CAATCTTTACAGAGATCTCTGCTT 3 3 0 AGATCGAAATCAAGTCCTCTCCAGTCTGCGA 3 83 0 TGTTATTTTTAAGGTTTTCTCTCCTTACAAC 3 161 0 TTTAACGAAGAGGGTTTTCTCTCTTCGTTTT 5 16 1 GAATTTTAGGAGGAATCTCCC 6 0 0 TTCATTTCTGAAGGGCCTATCGTAGTAAACA 6 45 0 TTGTGTTGAAAAGAACCTCTTCTTAGAAAGG 6 213 1 TCTTCTTAGAAAGGTTTTCTCTACGGGCGGT 6 230 1 GATACACGAAAAAGCCCTCTCCGGATCTGAT 6 309 0 TCTTTCTTTCAAGGATCTCTCTACCAAACAA 7 18 1 TATTATAGGAAGAGCTTTCCTGGAGAGAACT 8 132 1 GAAGGCTTTTAGAGTTCTCTCCAGGAAAGCT 8 144 0 GAGAACTCTAAAAGCCTTCTTGCTCAAGGAC 8 156 1 ATAGGGGAGAAGAATTTTCCCAATTTCAAAT 9 18 0 GGATAATATACGGGGTCTCTTTGTCAGGGTT 10 75 1 TAAAGGGGCTCCCTTACTAGCTT 11 50 0 TCCTCCAAGGAATTTCTTGATTTTCTTC 12 7 1 ATATGGGCGGAAAGGCTTCCCTTTAGAAGGA 13 218 1 **** ****** MAP Score: 14.4564 Motif 7 CTCTCTACCAAACAAAAAGGAAAAAAGAGA 7 34 1 GCAAAACCCTGACAAAGAGACCCCGTATAT 10 80 0 CGACCATCCTAACAAGGAGATCGTTAACAA 2 179 0 TCAGAAATGAAAGAAAGAGGTAGCTTGGGG 6 65 1 AGATCTTTTAACGAAGAGGGTTTTCTCTC 5 9 1 CCTTAAAGAAAACGAAGAGAGAAAACCCTC 5 25 0 CGAATATAGGAACGAAGAGAGCCTATGAGA 2 63 0 TTCAAGATGAGAGAAAAAGAATCCCCTTAG 11 17 0 AACAAAAAGGAAAAAAGAGATAATATAGGG 7 44 1 CTTGCTAAAAAAAAAAAAGGATAATATACG 10 57 1 GGATCGCATTAAAAAAAAGATGATGGATTC 3 55 1 TTTGATGCCAGGCAAAAAGAGTTGTTTTAT 0 21 0 TTCATTACATACCAAAAAGGATCTTGGTTC 14 76 1 TTAGGTGTAAGAGAAGAAGGATTTTTTTAT 0 66 1 TTTGTCCTTGAGCAAGAAGGCTTTTAGAGT 8 160 0 AACTCAATATGAGAAGAAGATTATCAACTG 5 183 0 GCTGTTGATGATCAAAAAGACGTGCCTTAT 8 29 1 GTAATCGATAGGGGAGAAGAATTTTCCCAA 9 26 0 ********** MAP Score: 13.4494 Motif 8 TCTGTGAATAATCTTGATTGTTAACGATCTCCT 2 162 1 GCGAGAGCAGATCTTGATTATTTTTGAAAATAG 0 229 1 ACCAAAAAGGATCTTGGTTCTATACAAGAAATT 14 86 1 CGAATCCATCATCTTTTTTTTAATGCGATCCTG 3 53 0 AGTAACACAATTCTTGATTGTGATTTGTGGTGA 6 100 1 TTTAGGTAAGATCTTGGTTCAGAAAGTGCAACG 0 172 1 TCCAAGGAATTTCTTGATTTTCTTCTATATCGA 12 13 1 TGATAAAAAAATCCTTCTTCTCTTACACCTAAA 0 65 0 CCCGTATATTATCCTTTTTTTTTTTTAGCAAGC 10 56 0 GCTTTTATCTAGCTTCTAAGATTCCCAAG 1 6 1 TTTTTCGTGTATCTAGTTTTTCAAGATTGCTAA 6 327 1 TTCTAGCAATATCTTTTTTAATAAGACTATACA 0 139 0 TTTTTCTCTCATCTTGAATGTAAGCTAGTAAGG 11 29 1 TATCTCTTTTTTCCTTTTTGTTTGGTAGAGAGA 7 33 0 CAAATATTAGATCCTTGTTTACTACGATAGGCC 6 30 1 AGCTACCTCTTTCTTTCATTTCTGAAGGGCCTA 6 57 0 ****** ** * * MAP Score: 13.3464 Motif 9 TGATTTGTGGTGATTTTTTTTCAAAAGTCG 6 120 1 GGTGAGAAAATGATTTTTTGATAAAAAAAT 0 86 0 GAGCAGATCTTGATTATTTTTGAAAATAGG 0 233 1 ATAATGTATTTGATTATTTTTCACGAATGA 2 107 0 AGGAATTTCTTGATTTTCTTCTATATCGAG 12 17 1 AGAAATGATTTTCTTGCTCGACATA 13 5 1 AAGAGAAGAAGGATTTTTTTATCAAAAAAT 0 74 1 ACTTCTAAGGGGATTCTTTTTCTCTCATCT 11 13 1 AATGGCAAACTGATTCTTCTTTTAATCACC 13 253 0 AACTAGGTAGTAATTTTTTGATATCGCTTG 10 27 1 TCTCGGAGTATAATTATTTTTTGATTATAA 6 260 1 CATGCTATCATGATTTTCCGTTAGGCACAA 13 82 0 TGGCATCAAATAATTATTTGTCGTTTTAGG 0 41 1 TTGAAAGAAAGAATTTTTTG 7 0 0 ********** MAP Score: 11.7356 Motif 10 TAAAAAAATCCTTCTTCTCTTACACCTAAAA 0 64 0 GAAGAAGGATTTTTTTATCAAAAAATCATTT 0 78 1 ATCCATCATCTTTTTTTTAATGCGATCCTGG 3 52 0 ACGAAGAGGGTTTTCTCTCTTCGTTTTCTTT 5 20 1 AGTTGATAATCTTCTTCTCATATTGAGTTAA 5 184 1 CAAGCTACCTCTTTCTTTCATTTCTGAAGGG 6 61 0 TTTGTGGTGATTTTTTTTCAAAAGTCGCCTA 6 123 1 CTAAGAAGAGGTTCTTTTCAACACAAGACAC 6 208 0 AAAAGAACCTCTTCTTAGAAAGGTTTTCTCT 6 221 1 GACAACAATACTTTTTAGCAATCTTGAAAAA 6 343 0 CAAAAAATTCTTTCTTTCAAGGATCTCTCT 7 9 1 CAGGAAAGCTCTTCCTATAATAGAAAAAATT 8 123 0 ATCCTTTTTTTTTTTTAGCAAGCAAGCGATA 10 48 0 AGGGGATTCTTTTTCTCTCATCTTGAATGTA 11 20 1 ATTTCTTGATTTTCTTCTATATCGAGACTAC 12 21 1 GCCTGTTTTGCTTTTTGTAAAAATACTTTTG 13 157 1 CCTACTCTCACTTCCTTGCAAAAGTATTTTT 13 175 0 CAAACTGATTCTTCTTTTAATCACCAGCCTC 13 247 0 TCCTAACAAATTTCTTGTATAGAACCAAGAT 14 96 0 ****** **** MAP Score: 11.1741 Motif 11 AAACTAAAATTCCTTGAAAATTACCCTATA 7 67 0 GGTAGAGAGATCCTTGAAAGAAAGAATTTT 7 13 0 GTCCTCTAAACCCTTGAAAATTTTTAGAAA 8 64 1 CTTTTTAGCAATCTTGAAAAACTAGATACA 6 334 0 ATCTTGATTATTTTTGAAAATAGGTATAGC 0 239 1 CCTAACAAATTTCTTGTATAGAACCAAGAT 14 96 0 TATGAGGGTCTCTTTGAATAAATGCGAGAG 0 206 1 ATTTAGCATTTTCTTGAGAAAAGGTTCATT 0 279 1 AGTAACACAATTCTTGATTGTGATTTGTGG 6 100 1 TACTCTCACTTCCTTGCAAAAGTATTTTTA 13 174 0 GGTGATTTTGCCCTTGTAAACGTAATTTTT 8 100 1 TTTTTCTCTCATCTTGAATGTAAGCTAGTA 11 29 1 TATTAGGCGACTTTTGAAAAAAAATCACCA 6 127 0 GCGAGAGCAGATCTTGATTATTTTTGAAAA 0 229 1 AGAAAATGATTTTTTGATAAAAAAATCCTT 0 82 0 AAATATTAGATCCTTGTTTACTACGATAGG 6 31 1 CCTGTTTTGCTTTTTGTAAAAATACTTTTG 13 158 1 GTATAATTATTTTTTGATTATAAGTAACCG 6 267 1 ATTCAAAGTCTTATTGAAAAACGTAATGAG 13 51 1 GTTAACGATCTCCTTGTTAGGATGGTCGGG 2 181 1 TCTGTGAATAATCTTGATTGTTAACGATCT 2 162 1 CCGCGTTTCATTCGTGAAAAATAATCAAAT 2 100 1 ********** MAP Score: 9.71103 Motif 12 GCTTCTAAGATTCCCAAGGGTGTC 1 21 1 CCCGACCATCCTAACAAGGAGATCGTTAACAAT 2 178 0 ATGAATATGTTTGGTAAGGGCCTACTGTATAAG 2 236 1 CCTGTTGTTATTTTTAAGGTTTTCTCTCCTTAC 3 164 0 TAAAAAATGCCTTTTGAGGGTTTAATAACATGA 5 139 0 TTTCTTTCATTTCTGAAGGGCCTATCGTAGTAA 6 48 0 AAAATTCTTTCTTTCAAGGATCTCTCTACCAAA 7 13 1 TATAGGGTAATTTTCAAGGAATTTTAGTTTTAA 7 67 1 TTTCTAAAAATTTTCAAGGGTTTAGAGGACCAT 8 61 0 AAAAATTACGTTTACAAGGGCAAAATCACCTAT 8 97 0 ACGGGGTCTCTTTGTCAGGGTTTTGC 10 84 1 GTAACTTCTAAGGGGATTCTTTTTCTC 11 4 1 TCCTCCAAGGAATTTCTTGATTTT 12 1 1 TAAAAATACTTTTGCAAGGAAGTGAGAGTAGGT 13 174 1 *** ****** * MAP Score: 9.327 Motif 13 TAGGTGTAAGAGAAGAAGGATTTTTTTATCA 0 67 1 TAGTCTTATTAAAAAAGATATTGCTAGAATT 0 143 1 ATTATTTTTGAAAATAGGTATAGCATAGGGG 0 245 1 GGATCGCATTAAAAAAAAGATGATGGATTCG 3 55 1 CCTATCGTAGTAAACAAGGATCTAATATTTG 6 30 0 GAGATCCTTGAAAGAAAGAATTTTTTG 7 6 0 AACAAAAAGGAAAAAAGAGATAATATAGGGT 7 44 1 TTGCTAAAAAAAAAAAAGGATAATATACGGG 10 58 1 TCAAGATGAGAGAAAAAGAATCCCCTTAGAA 11 15 0 GAGTAGGTAGAGAACAGGGATATGGGCGGAA 13 199 1 GCTGGTGATTAAAAGAAGAATCAGTTTGCCA 13 250 1 GCAACTGAAAAAAGTAAGGATAAGT 13 285 1 **** ****** MAP Score: 8.6566 Motif 14 AGGTGTAAGAGAAGAAGGATTTTTTTATCAAAAAATC 0 68 1 TGAATAAATGCGAGAGCAGATCTTGATTATTTTTGAA 0 220 1 CACCTAAGAAGCAAAACTTCTTATACAGTAGGCCCTT 2 251 0 AAGCAGAGATCTCTGTAAAGATTGGGGAA 3 2 1 TAAAGATTGGGGAAAGGGAAGTGTATACCAGGATCGC 3 25 1 GCGGTTGTAAGGAGAGAAAACCTTAAAAATAACAACA 3 158 1 ATCTTTTAACGAAGAGGGTTTTCTCTCTTCGTTTTCT 5 12 1 TCAGGTGAGTGTACAGATTTTCATGTTATTAAACCCT 5 119 1 ATTAAACCCTCAAAAGGCATTTTTTATCTGTAAAAGC 5 146 1 TTTCATTTCTGAAGGGCCTATCGTAGTAAACAAGGAT 6 40 0 ACCTTTCTAAGAAGAGGTTCTTTTCAACACAAGACAC 6 208 0 GAGACCGCCCGTAGAGAAAACCTTTCTAAGAAGAGGT 6 227 0 GATCAGATCCGGAGAGGGCTTTTTCGTGTATCTAGTT 6 308 1 TTTTTGTTTGGTAGAGAGATCCTTGAAAGAAAGAATT 7 15 0 AAGGAGAGAGAGTCATAAAGCTGTTGATG 8 2 1 GTTCTCTCCAGGAAAGCTCTTCCTATAATAGAAAAAA 8 125 0 GTTAAAAAGTCTGGAGGATTTTGTCCTTGAGCAAGAA 8 172 0 GTAACTTCTAAGGGGATTCTTTTTCTCTCATCTT 11 7 1 ATGTAAGCTAGTAAGGGAGCCCCTTTA 11 46 1 TGACTGGGGAGTAGAGGTGGGCCTGTAACTCTGAGAC 12 67 1 AGAAATGATTTTCTTGCTCGACATAGAA 13 1 1 TGCTCTAGGGGTAGGGGCATCCTGAATCGACTACATG 13 108 0 TCACTTCCTTGCAAAAGTATTTTTACAAAAAGCAAAA 13 162 0 GGATATGGGCGGAAAGGCTTCCCTTTAGAAGGAGGCT 13 216 1 TTGCTAAACCGGAGAGAGTGTTGTGTTT 14 1 0 TCAAACAACAGAAGAGTTGTTTTTGTTTTTGCAATTC 14 42 1 TCATTACATACCAAAAAGGATCTTGGTTCTATACAAG 14 77 1 * ***** ** * * MAP Score: 6.11105 Motif 15 TAGGTGTAAGAGAAGAAGGATTTTTTTATCA 0 67 1 GACCATCCTAACAAGGAGATCGTTAACAATC 2 177 0 GGCCTACTGTATAAGAAGTTTTGCTTCTTAG 2 254 1 ACTCAATATGAGAAGAAGATTATCAACTGGC 5 181 0 GAGTTCAGAAATAAGGAGATTC 5 233 1 TCGATAGGGGAGAAGAATTTTCCCAATTTCA 9 21 0 CTAAAAAAAAAAAAGGATAATATACGGGGTC 10 61 1 GCTTCCCTTTAGAAGGAGGCTGGTGATTAAA 13 232 1 GCTGGTGATTAAAAGAAGAATCAGTTTGCCA 13 250 1 TTGGTTCTATACAAGAAATTTGTTAGGATCG 14 99 1 * ********* MAP Score: 1.42521