AlignACE 3.0 10/20/99 AlignACE2 -i CT/CT_operons005_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944241959 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 sucA 300 Oxoglutarate Dehydrogenase #1 CT230 225 Neutral Amino Acid (Glutamate) Transporter #2 pdhA 221 Pyruvate Dehydrogenase Alpha #3 tpiS 196 Triosephosphate Isomerase #4 CT330 208 hypothetical protein #5 pdhA/B 34 (pyruvate) Oxoisovalerate Dehydrogenase Alpha and Beta Fusion #6 dnaJ 28 Heat Shock Protein J #7 rs21 196 S21 Ribosomal Protein #8 CT343 300 O-Sialoglycoprotein Endopeptidase family #9 sucB_2 245 Dihydrolipoamide Succinyltransferase #10 ribC 300 Riboflavin Synthase #11 CT552 300 hypothetical protein #12 fmu 124 RNA Methyltransferase #13 brnQ 149 Amino Acid (Branched) Transport #14 CT555 174 SWI/SNF family helicase #15 CT556 177 hypothetical protein #16 lpdA 208 Lipoamide Dehydrogenase #17 ispA 55 Geranylgeranyl pyrophosphate synthase #18 glmU 52 UDP-GlcNAc Pyrophosphorylase #19 cpxR 178 HTH Transcriptional Regulatory Protein and Receiver Domain #20 tktB 300 Transketolase Motif 1 TATTCTTTCCAAAGAACTTCTGTGACTTGGGA 13 83 1 CTAGGTATTTAAACACCCTCTGGGGTT 18 5 0 GAAACAACCTTTGTCAAACAAAG 17 1 1 CTTTTCTCTAAAATACCTTCTCTCTTCTTCTT 20 104 1 ATGCTACAAAAAAAAACTTTTCGGCACTACCC 2 45 0 TCGTATAGGTAATCAACTTCTGCTAAAGGAAA 20 274 1 AAAGGGTTAGAAAAAGTTTTTGTCGCACGAGG 11 135 0 ATGTTACACTAAACATTTTTTGAAACCACAGA 9 68 0 AAAAAATCTTTGTTAGTGGTGT 6 0 1 TACAGATAAAAAATGCCTTTTGAGGGTTTAAT 9 146 0 CTTGTGTTGAAAAGAACCTCTTCTTAGAAAGG 10 120 1 GGACAGGAAAAAAGACTTTCTCTAACAACCAG 11 232 0 TTTCTTGCAAAAAAAATCTCTCCTTTCTTACA 1 158 1 CGTTCTTTCTCAAGAGCTTTTGTTCGGATTGC 11 264 1 AAGAATCAATCTCTGTTACGTTCCC 14 159 0 AGATACACGAAAAAGCCCTCTCCGGATCTGAT 10 217 0 CTCGGAGTATAATTATTTTTTGATTATAAGTA 10 169 1 GGCGACAGCGAATTAATTTTTGAATTAAAACG 8 229 1 AAACGTGGAAAAAATCTCTTTTGAAGACGC 4 8 1 TAGTTTTTTCAAAGAGCCTCAGAAAAAAAACC 19 111 0 CCTTTTGGGACAACAACTTTTCAAGAGTTTTG 7 18 1 AATACAACAAAAATAGTTTTTTCAAAGAGCCT 19 124 0 CTCTTCTTAGAAAGGTTTTCTCTACGGGCGGT 10 137 1 GAATTGACAAAATTAACTTTTTAACAATTTTT 1 100 1 TCGAATTATAAATGAGCTTTTTTAGTAAAGTC 8 186 1 TTCTTTTTCTCATCAACCTTTGTTTGACAAAG 17 18 0 ATGTCTTTCAAATAAATCTTTTGAATTTCACT 2 161 0 *** * ****** MAP Score: 20.6944 Motif 2 GGAAGGAGAATCCTCTTCCCTCAGATAATCA 16 138 1 TGAAGGACCTCTCTTTTCCTTTCCTAGAAAG 16 103 1 TATGCCTGCTCACTTTTTGCTCTGTCTGAGC 0 66 0 CGCACGAGGTTGCTTTTTCCTACGATAGATC 11 113 0 AGAGAGAAAACCCTCTTCGTTAAAAGATCT 9 9 0 AGAGGGTTTTCTCTCTTCGTTTTCTTTAAGG 9 24 1 TTCCTTTTCGCTTCCATCATCT 12 1 1 TCTATTCAACTTCTCTTTGCTGCAATTGATA 8 141 0 CTTTTTCTAACCCTTTTTTCTCTTAACTCTC 11 151 1 ACTTTTTTTCCGCTTTTTTCTAAGATTTCCT 11 203 1 CGATAGTTTATTCTCTTCCCCAATAGGAGAA 12 44 1 TTACCCCCTTTTCTTTTCTCTAAAATACCTT 20 92 1 AAGAGCATCCCTCTCTTGGCTCGAAGGACCG 12 100 1 CTTTAGAAGCTTCTCTTGCCTTGTATGAAGA 4 90 1 CTTCTTGTCTTACTTTTTTCTGTGAATTTGC 3 40 0 AGCGGCTACCCCCTTCTCCTTTTTAGTCTGT 20 54 0 GTTCTTATCCTACTCTTTGTTTGGATCTATC 11 90 1 CAAAAAAAATCTCTCCTTTCTTACATTTAGT 1 165 1 AATACCTTCTCTCTTCTTCTTGCTGTAATCC 20 115 1 AAGCAAACTTTGCTTTTTTTTTAAGTATCGA 0 209 0 TGTTTAATATTACTTCTTCTTACCGATATAC 8 57 1 AGCAACTGCCTTCTTTTTCTCATCAACCTTT 17 29 0 TACTCCTAAACACTCGTTCCTTTCTGCCTAG 14 113 1 CTCCTGCTACCACTTCTCCTCATTGAGATTT 16 34 1 GTAAGGGATGTTCTTTTGCCCGGAAAGCAAC 14 53 1 TGACCTTTTATTCTTCTTTTTACGTATTACC 15 23 1 * ********* MAP Score: 20.6049 Motif 3 TACAAAAGCTAGCAGAGCTTGGCTTATCAGT 0 156 0 TTAAAAAAAAAGCAAAGTTTGCTTTTTTTGA 0 216 1 ATGGGAACGTAACAGAGATTGATTCTT 14 157 1 TCCTTGGAAGAGCAAGGGTTGTGTGCACATG 8 28 1 TTTTTCCTTTAGCAGAAGTTGATTACCTATA 20 277 0 ACCTTTGTCAAACAAAGGTTGATGAGAAAAA 17 16 1 GAGAAAGTATAGCAGGGTTTTTATCAATTGC 8 120 1 AATGTAAGAAAGGAGAGATTTTTTTTGCAAG 1 161 0 CAAATAGATCAGGAGAGATTTTGGCTAATAA 0 99 1 AAACACCACTAACAAAGATTTTTT 6 3 0 AACTAGATAAAGCAGAGAATGAGCTGTTTAT 19 34 1 AAATTCCCATAGCAAAATTTTTATTTTTCAA 0 243 0 TTAATGCCTAAACAAAACTTGGCAAAGTATT 1 26 1 TTCCTTTCCTAGAAAGGCTTGGAAGGAGAAT 16 118 1 AATTGCAGCAAAGAGAAGTTGAATAGAAAAA 8 145 1 TCTTTTAACGAAGAGGGTTTTCTCTCTTCGT 9 13 1 TAGCGTCTTCAAAAGAGATTTTTTCCACGTT 4 11 0 ACCTCTTCTTAGAAAGGTTTTCTCTACGGGC 10 135 1 AGGGGATGTTAAGAAAAATTGTTAAAAAGTT 1 114 0 GCTCTGTCTGAGCAAAAGATGCAGTTACCCT 0 48 0 AAAAAGGGTTAGAAAAAGTTTTTGTCGCACG 11 138 0 TATGCTACAAAAAAAAACTTTTCGGCACTAC 2 47 0 ******* *** MAP Score: 18.8802 Motif 4 GGTAGTGCCGAAAAGTTTTTTTTTGTAGCATAG 2 46 1 AAGGGTTAGAAAAAGTTTTTGTCGCACGAGGTT 11 133 0 GGGACAGGAAAAAAGACTTTCTCTAACAACCAG 11 232 0 TAAACCCTCAAAAGGCATTTTTTATCTGTAAAA 9 148 1 GGTGTCTTCTAAAGGCGTTTTTTGGGTTGCTTT 14 76 0 ATACTCATTCCAAAGTATTTGTTCAACTGATAA 0 131 1 CTTTTAACGAAGAGGGTTTTCTCTCTTCGTTTT 9 14 1 TCAGATCCGGAGAGGGCTTTTTCGTGTATCTAG 10 218 1 AAAAAATCTTTGTTAGTGGTGTTT 6 1 1 AGCGTCTTCAAAAGAGATTTTTTCCACGTTT 4 8 0 AAAACTCTTGAAAAGTTGTTGTCCCAAAAGGAA 7 16 0 CTCAAGATACCACGGTTTTTATTTTAATGGATA 10 76 1 ATTCCCATAGCAAAATTTTTATTTTTCAAAAAA 0 239 0 GAGTGAAATTCAAAAGATTTATTTGAAAGACAT 2 160 1 GTTCTTTCTCAAGAGCTTTTGTTCGGATTGCGT 11 265 1 AACAACTTTTCAAGAGTTTTGTTTACTTGTTTG 7 29 1 ACAACCCGGGAAATGTATTTGTCTGAAGGACCT 16 80 1 GAAAGTATAGCAGGGTTTTTATCAATTGCAGCA 8 122 1 AGAAATCTTTAGCGGACTTTTTTTCCGCTTTTT 11 188 1 TCTAATAGTTCAATGGGTTTATTTAT 19 162 1 TTAACTTTTTAACAATTTTTCTTAACATCCCCT 1 112 1 GAAACAACCTTTGTCAAACAAAGGT 17 2 1 GTAAGAAAGGAGAGATTTTTTTTGCAAGAAAGG 1 156 0 AACCTTTCTAAGAAGAGGTTCTTTTCAACACAA 10 121 0 CCTCTTCTTAGAAAGGTTTTCTCTACGGGCGGT 10 136 1 AGTTGAATAGAAAAACTGTTATTTATCGAATTA 8 161 1 CTAATACAACAAAAATAGTTTTTTCAAAGAGCC 19 125 0 CTTCCCAAGTCACAGAAGTTCTTTGGAAAGAAT 13 84 0 AAGACTCATTAAAAGAATTCGTTGCTTTAAAGT 11 30 0 CTGAATAAGTAAGGGATGTTCTTTTGCCCGGAA 14 45 1 ***** *** ** MAP Score: 18.8705 Motif 5 ATAAAATACTCATTCCAAAGTATTTGTTCAACTGATA 0 126 1 TAAGAAAAATTGTTAAAAAGTTAATTTTGTCAATTCT 1 99 0 TAACATCCCCTATTAGAGAGCTCCTTTCTTGCAAAAA 1 134 1 TCAAAAGATTTATTTGAAAGACATTCTAGAATTTTTC 2 169 1 TCAGGAACCCTTTATCCAAGAGAATCT 2 204 1 TTTCATAGCGTCTTCAAAAGAGATTTTTTCCACGTTT 4 10 0 ACCAACCACGTCTTTAGAAGCTTCTCTTGCCTTGTAT 4 79 1 TAAACAAAACTCTTGAAAAGTTGTTGTCCCAAAAGGA 7 17 0 AATGAGCTTTTTTAGTAAAGTCGGTTTTGATTTGGCG 8 196 1 AGATCTTTTAACGAAGAGGGTTTTCTCTCTTCG 9 6 1 TGTTATTAAACCCTCAAAAGGCATTTTTTATCTGTAA 9 142 1 CTGTGTCTTGTGTTGAAAAGAACCTCTTCTTAGAAAG 10 114 1 AAGAACCTCTTCTTAGAAAGGTTTTCTCTACGGGCGG 10 131 1 CTGTCCCGTTCTTTCTCAAGAGCTTTTGTTCGGATTG 11 258 1 ATCCTTTATTCTTTCCAAAGAACTTCTGTGACTTGGG 13 77 1 TAGATAGGTGTCTTCTAAAGGCGTTTTTTGGGTTGCT 14 78 0 GCCCAAAGACTGTTAAAGAGGTGATCTC 15 159 1 AAGAGGATTCTCCTTCCAAGCCTTTCTAGGAAAGGAA 16 118 0 CCTAAACACTCATTGAAGAGGAAATGTT 16 190 1 TCAACCTTTGTTTGACAAAGGTTGTTTC 17 1 0 CAAAAATAGTTTTTTCAAAGAGCCTCAGAAAAAAAAC 19 112 0 * ** **** *** MAP Score: 17.4207 Motif 6 GTCACAGAAGTTCTTTGGAAAGAATAAAGGAT 13 77 0 AGGAGAGATTTTTTTTGCAAGAAAGGAGCTCT 1 150 0 CAACATCCCCTTGTTTGCAAGACGATACCCCT 15 87 0 TTCAAAAGATTTATTTGAAAGACATTCTAGAA 2 168 1 TGTGGTGATTTTTTTTCAAAAGTCGCCTAATA 10 33 1 AAAGAACCTCTTCTTAGAAAGGTTTTCTCTAC 10 130 1 AAAGTTTGCTTTTTTTGAAAAATAAAAATTTT 0 229 1 TTTTTTCCGCTTTTTTCTAAGATTTCCTGGTT 11 206 1 ACAAAAATAGTTTTTTCAAAGAGCCTCAGAAA 19 118 0 TAAATGAGCTTTTTTAGTAAAGTCGGTTTTGA 8 194 1 TAATACTCGATTTCTTGCAAGGAAGGCTTATT 3 124 0 GCCTCCTGACTTCTTACAAAAGCTAGCAGAGC 0 169 0 CTCTTTTCCTTTCCTAGAAAGGCTTGGAAGGA 16 113 1 TCCTGTCCCGTTCTTTCTCAAGAGCTTTTGTT 11 256 1 TCATCAACCTTTGTTTGACAAAGGTTGTTTC 17 9 0 ATTTACTTGCTTCCTACCAAGGGTAACTGCAT 0 29 1 GATATCGGTTTTTTTTCTGAGGCTCTTTGAAA 19 105 1 AATGAGTATTTTATTAGCCAAAATCTCTCCTG 0 108 0 GATTTCCTGGTTGTTAGAGAAAGTCTTTTTTC 11 226 1 ** **** **** MAP Score: 16.1719 Motif 7 GCCAATTTACTTGCTTCCTACCAAGGGTAACTGCAT 0 25 1 CCTAGCCTCCTGACTTCTTACAAAAGCTAGCAGAGC 0 169 0 AAAGCAAAGTTTGCTTTTTTTGAAAAATAAAAATTT 0 224 1 AGAGAGCTCCTTTCTTGCAAAAAAAATCTCTCCTTT 1 148 1 AATTCTAGAATGTCTTTCAAATAAATCTTTTGAATT 2 166 0 AGATTCTCTTGGATAAAGGGTTCCTGAAAA 2 201 0 TTATTTTCTATTGCTTTGATATAAATCTCTTGGATA 3 78 0 TAATACTCGATTTCTTGCAAGGAAGGCTTATTTTTA 3 120 0 CGTTTCATAGCGTCTTCAAAAGAGATTTTTTCCACG 4 13 0 AAGCTTCTCTTGCCTTGTATGAAGAGGCTGATCAAT 4 96 1 AAATCAAAACCGACTTTACTAAAAAAGCTCATTTAT 8 193 0 GAGAGAAAACCCTCTTCGTTAAAAGATCT 9 3 0 AGATATTAGGCGACTTTTGAAAAAAAATCACCACAA 10 32 0 TAAAATCCTGTGTCTTGTGTTGAAAAGAACCTCTTC 10 107 1 TTGAAAAGAACCTCTTCTTAGAAAGGTTTTCTCTAC 10 126 1 CAAACAGCGGTTACTTATAATCAAAAAATAATTATA 10 176 0 AAAGAATTCGTTGCTTTAAAGTAGGGAGGATATCGC 11 16 0 CCGCTAAAGATTTCTTAGATAGAGAGTTAAGAGAAA 11 167 0 GACTTTTTTTCCGCTTTTTTCTAAGATTTCCTGGTT 11 202 1 AGAGCATCCCTCTCTTGGCTCGAAGGACCGTCA 12 101 1 GATGATATGCCCTCTTATAAGTAAAAATTATCATTT 13 117 1 GGAGGGGTATCGTCTTGCAAACAAGGGGATGTTGCG 15 85 1 GACCTCTCTTTTCCTTTCCTAGAAAGGCTTGGAAGG 16 108 1 GTTACCCCCTTTTCTTTTCTCTAAAATACCTTCTCT 20 91 1 ** *** * **** MAP Score: 15.7443 Motif 8 CTAAATGTAAGAAAGGAGAGATTTTTTTTGC 1 164 0 AAGCAAATTCACAGAAAAAAGTAAGACAAGA 3 38 1 CTTCATACAAGGCAAGAGAAGCTTCTAAAGA 4 89 0 TAGTATATCGGTAAGAAGAAGTAATATTAAA 8 59 0 ATCAATTGCAGCAAAGAGAAGTTGAATAGAA 8 142 1 TTAACTCAATATGAGAAGAAGATTATCAACT 9 184 0 TGGATCTATCGTAGGAAAAAGCAACCTCGTG 11 111 1 AGAGAGTTAAGAGAAAAAAGGGTTAGAAAAA 11 152 0 TCTCCTATTGGGGAAGAGAATAAACTATCGA 12 43 0 GGTCCTTCGAGCCAAGAGAGGGATGCTCTTT 12 99 0 AAGGTAATACGTAAAAAGAAGAATAAAAGGT 15 25 0 TAAAATCTCAATGAGGAGAAGTGGTAGCAGG 16 36 0 TCTAGGAAAGGAAAAGAGAGGTCCTTCAGAC 16 100 0 AGAAAGGCTTGGAAGGAGAATCCTCTTCCCT 16 128 1 ATGATTATCTGAGGGAAGAGGATTCTCCTTC 16 139 0 ACAAAGGTTGATGAGAAAAAGAAGGCAGTTG 17 27 1 TCACAGACTAAAAAGGAGAAGGGGGTAGCCG 20 52 1 TATTTTAGAGAAAAGAAAAGGGGGTAACTGC 20 88 0 ACAGCAAGAAGAAGAGAGAAGGTATTTTAGA 20 110 0 AAATTCGATAATAAGGAGAATAAAATAAATT 20 219 0 * ********* MAP Score: 8.26443 Motif 9 GTATTCGATACTTAAAAAAAAAGCAAAGTTTGCT 0 205 1 AAATTTTTATTTTTCAAAAAAAGCAAACTTTGCT 0 226 0 CATTATTTAGTTATTTAAAAATGGCTATTATGTT 1 59 0 AGCTCCTTTCTTGCAAAAAAAATCTCTCCTTTCT 1 152 1 CAAGTCTATGCTACAAAAAAAAACTTTTCGGCAC 2 50 0 TCTAGAATGTCTTTCAAATAAATCTTTTGAATTT 2 165 0 TAGGCGCGCGTTATTAAATAAAACCAATTACGTA 7 160 1 CAAAACCGACTTTACTAAAAAAGCTCATTTATAA 8 191 0 TTAGGCGACTTTTGAAAAAAAATCACCACAAATC 10 29 0 ATTTTATCCATTAAAATAAAAACCGTGGTATCTT 10 79 0 TTTGGATCTATCGTAGGAAAAAGCAACCTCGTGC 11 109 1 AACCAGGAAATCTTAGAAAAAAGCGGAAAAAAAG 11 204 0 GTAGTCTAAACTTGAAAAAAAGTCTGAAGATATC 19 77 1 TTCAAAGAGCCTCAGAAAAAAAACCGATATCTTC 19 102 0 TTTTCTGAGGCTCTTTGAAAAAACTATTTTTGTT 19 117 1 TCAACTTCTGCTAAAGGAAAAAAC 20 286 1 ** ******* * MAP Score: 4.46827 Motif 10 GGAAACCCCCTGAGAGCCAATTTACTTGCT 0 6 1 GATGCAGTTACCCTTGGTAGGAAGCAAGTAAATT 0 28 0 TTCTTAACATCCCCTATTAGAGAGCTCCTTTCTT 1 130 1 TCCGCGCCGGCCTTGCATAGCCAGAGTGAAATTC 2 137 1 ATAAAAATAAGCCTTCCTTGCAAGAAATCGAGTA 3 119 1 ACGATTCGCTCCGTTGGTCGGAAAGCTGTTTAAT 4 176 0 AATCCCCGGTCTCTTGTGCGTTCGAGCTAGGCGC 7 133 1 TGAAAAGAACCTCTTCTTAGAAAGGTTTTCTCTA 10 127 1 CAATTAAATACCTTTGCTAGGTCGTGACAACAAT 10 273 0 AAAGAGCATCCCTCTCTTGGCTCGAAGGACCGTC 12 99 1 CTGTTACGTTCCCATGCTTGCGCATGACCTAGGC 14 138 0 TCGCAACATCCCCTTGTTTGCAAGACGATACCCC 15 88 0 CCTCTCTTTTCCTTTCCTAGAAAGGCTTGGAAGG 16 110 1 TTCTCATCAACCTTTGTTTGACAAAGGTTGTTTC 17 10 0 ****** * * ** MAP Score: 2.70915 Motif 11 AGCAAAAGATGCAGTTACCCTTGGTAGGAA 0 39 0 AGCAGCTCCCTCTCAGCTAAA 5 23 0 AAGGCAAACAGCGGTTACTTATAATCAAAA 10 186 0 TTTAAAGTACGCAGCTACACGGTTGCTTTC 12 72 0 AACTGCGTTAGCGGCTACCCCCTTCTCCTT 20 64 0 AGCCGCTAACGCAGTTACCCCCTTTTCTTT 20 78 1 ********** MAP Score: 2.39758