AlignACE 3.0 10/20/99 AlignACE2 -i AG/AG_operons008_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944242417 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 AF0219_AF0220 180 AF0219: 2-isopropylmalate synthase (leuA-2), AF0220: biotin carboxylase (acc) #1 AF0629 31 3-isopropylmalate dehydratase, small subunit (leuD-1) #2 AF0632 80 nifU protein (nifU-3) #3 AF0633 173 isoleucyl-tRNA synthetase (ileS) #4 AF0647 132 isocitrate dehydrogenase, NADP (icd) #5 AF0957 53 2-isopropylmalate synthase (leuA-1) #6 AF1014 126 dihydroxy-acid dehydratase (ilvD) #7 AF1252 194 oxaloacetate decarboxylase, subunit alpha (oadA) #8 AF1269 300 A. fulgidus predicted coding region AF1269 #9 AF1270 33 transcriptional regulatory protein, ArsR family #10 AF1720 182 acetolactate synthase, large subunit (ilvB-1) #11 AF1778 105 stage V sporulation protein (spoVG) #12 AF1779 57 2-hydroxyacid dehydrogenase, putative #13 AF1963 174 aconitase (acn) #14 AF1985 45 ketol-acid reductoisomerase (ilvC) #15 AF2013 275 coenzyme F390 synthetase (ftsA-3) #16 AF2014 63 sugar transporter, putative #17 AF2086 41 protease inhibitor, putative #18 AF2089 111 conserved hypothetical protein #19 AF2100 106 acetolactate synthase, large subunit (ilvB-4) #20 AF2199 82 3-isopropylmalate dehydratase, large subunit (leuC) #21 AF2216 131 methylmalonyl-CoA decarboxylase, biotin carboxyl carrier subunit (mmdC) #22 AF2219 137 methylmalonyl-CoA mutase, subunit alpha, C-terminus (mcmA2) Motif 1 AAAACCAAAGCTTTTTAATCATAAAG 17 6 1 ACGCTATATTAAAGCTTTTAGCTAATGACC 18 31 1 TGGGCGAACCAAAACTTTTTAAAGCGCATG 10 69 1 AGTGGCTTTTAAAGCCTTTTGCTGCAAACG 15 187 1 CTGGAAGGCCAAAGTTTTTTTACCCACTCG 5 19 1 AACCTTTTGAAAAGCGTTTTTAAACTTGAA 18 77 1 TTTTGCTTCAAAACCTTTTTATCTTTTCTG 12 23 1 ACCGATTTAAAAACCTTTTTTCAAATAGAA 0 30 1 AAAATGTGCAAAAGTTTTTACGGTATAATT 4 53 0 GGGAAATACAAAAATTTTTTGTTTTTAATA 7 94 0 ATTAATCCGAAAAATTTTTACCTATATGAC 22 100 1 TTATTTGCATAAAATTTTTAGCTTTTTAAT 16 30 1 ACTGGCGGGAAAACCGTTTTTTAATACTGC 15 58 0 TCATTGTAGTACAGCTTTTACTTCTTTTCT 10 139 1 TTCAAACCAAAAAGCTTATTATTTCCGTCA 2 46 1 CAACCTTAGCAAACTTTTTAAAATTATAAT 19 74 1 GACAAAAAACAAAACATTTATTTGTTTTAA 6 27 0 GTTCTTCAGGAAAGTTTATTTAGGTTGATG 7 34 0 GTTCATTAAAAAAGTATTTAAGGCTTTTCT 20 17 1 AGTTAAGTCAACAATTTTTACTTTTGCCAT 7 138 0 ********** MAP Score: 21.6122 Motif 2 TAAAGCCACCGATTTAAAAACCTTTTTTCAAATAG 0 23 1 GTATCTGGCAGTATTAAAAAACGGTTTTCCCGCCA 15 51 1 AGTAGGGGCGGAATTAAAAAAGGTT 1 0 0 TGCAAGCTAAGTTTTAAAAACTACTTACCTTTGTA 10 15 0 ACCAGCATGCGCTTTAAAAAGTTTTGGTTCGCCCA 10 69 0 AATAACGAGTGGGTAAAAAAACTTTGGCCTTCCAG 5 19 0 AGTATAAAAAATGAGTAGGGATATAA 13 1 1 CAGGCTGCAAGAGTTTAAAACCCATCGAATACGAT 19 32 0 TTCGATTTCAAGTTTAAAAACGCTTTTCAAAAGGT 18 78 0 ACAGCCGGTGGATTAAAAAAGTTATCAGCTTTCCT 3 139 0 GCAGCAAAAGGCTTTAAAAGCCACTGCCTTTAATC 15 177 0 CTAAACTTTATGATTAAAAAGCTTTGGTTTT 17 6 0 TTTGAGAGTTCATTAAAAAAGTATTTAAGGCTTT 20 9 1 GGTTGTGGTAGTTTATAAAATCCTTCCGCTCTTGG 4 100 0 ATCCAACCAAAACTTAAAAAATAATGAAGCACTTC 6 94 1 TTATGATTATAATTTTAAAAAGTTTGCTAAGGTTG 19 74 0 GAAATTTAAAGAATTAAAAAGCTAAAAATTTTATG 16 37 0 CCGAGCCAACTTATTTAAAATTATTTGGAATGAAC 22 20 1 * ******* * * MAP Score: 18.9536 Motif 3 CCAGTTTTAAGGCTAAAGCCACC 0 3 1 TAAACCCTTATTTTTCAGCCTACTATCCCT 3 51 1 CCCTCCTAATTTTTGCTGCCCCACCATGAT 3 77 1 GCTGATAACTTTTTTAATCCACCGGCTGTT 3 145 1 AAGCTTTCAGCATCGAAATTCA 4 2 1 CGGTATAATTGCTTTAAGCCTCACATGAGC 4 33 0 ACATTTATTTGTTTTAATCACAAAAATCGT 6 14 0 GTCGCCTATATTTTGCAGCGCAAAGTATAA 8 215 1 TTAAAACTTAGCTTGCAGCAGTGCAATTAC 10 33 1 AACCAAAACTTTTTAAAGCGCATGCTGGTG 10 75 1 TCCAGAGAACTTTTTCATCACTCCCACCAC 10 102 0 GATAAAAAGGTTTTGAAGCAAAAGCCAAAC 12 16 0 AAGATTTTTAAGCAGATTCGCTCA 13 160 0 AGGCAGTGGCTTTTAAAGCCTTTTGCTGCA 15 183 1 AAACGAATGCGTTTGCAGCAAAAGGCTTTA 15 196 0 AACGCATTCGTTTTTCAGGATGGTGAAGTA 15 213 1 AAACCAAAGCTTTTTAATCATAAAGTTTAG 17 11 1 GGTTTTAAACTCTTGCAGCCTGACAAAATC 19 45 1 CTTAAATACTTTTTTAATGAACTCTCAAA 20 9 0 ********** MAP Score: 14.9369 Motif 4 AACAAAAATTGGAGGGATTT 2 0 0 GGAGGGAGAGTGAGGGAAGG 3 0 1 GCAAAAATTAGGAGGGATAGTAGGCTGAAA 3 63 0 ATACCATCATGGTGGGGCAGCAAAAATTAG 3 82 0 CTTGTGGCAAGCAGGGACTGGTGTCCGTCT 7 173 0 CCCTGTGAGAGGTGAGAGAGCTTGCAATCT 8 160 0 CGATCCTCTGGTTGGGATAGACAGTAGAAA 8 255 1 GCATGCTGGTGGTGGGAGTGATGAAAAAGT 10 94 1 AAATTTGAAAGGAGGGTTAGAA 11 93 1 TAAAAAATGAGTAGGGATATAAACCAAAGC 13 14 1 AAATCCGGGAGGCGGGACTTGAATGCTTTG 13 38 0 AGAGGTAGAGCGTGGGACTGTAGTCCGCCA 13 104 0 TGAGAGAGAAGGAGGGAGTGGTTGAGCTCA 21 68 1 ********** MAP Score: 14.7559 Motif 5 GAGCTAAGTAGGGGCGGAATTAAAAAAGGTT 1 10 0 AAGCTTTTTGGTTTGAAAGAGGAGGAGTACACAAACAAA 2 24 0 GGAGGGAGAGTGAGGGAAGGTATTAAACTTTA 3 3 1 AATTAGGAGGGATAGTAGGCTGAAAAATAAGGGTTTACA 3 49 0 AGCGGAAGGTTGTGGTAGTTTATAAAATCCTT 4 110 0 AGAACAATAAGAAAGCATCGGGAAGATTTTGACAAAAAA 6 48 0 TTGCCATGTCTCAAGCCTGATGGGAAATACAAAAATTTT 7 106 0 CTCTGGTTGGGATAGACAGTAGAAAATTTCCTGTTAAAG 8 260 1 TTTTTAAAGCGCATGCTGGTGGTGGGAGTGATGAAAAAG 10 84 1 TCTTTTCTAAAGGAGTTAGAGGTGGTTTTAA 10 161 1 GGGCTTATTATGAGAGCGTGGTAATTTAATCTAACGTT 11 9 1 TTAGCTCAGAGGTAGAGCGTGGGACTGTAGTCCGCCACT 13 102 0 CTGCAGCTCAGACAGTATCTGGCAGTATTAAAAAACGGT 15 37 1 GCATTCGTTTTTCAGGATGGTGAAGTATTTAAATCCTGC 15 216 1 TATCTTTCTGTCATGAGGGAGGCAGGATTTAAATACTTC 15 237 0 CGCTATCTGAGAGAGAAGGAGGGAGTGGTTGAGCTCAGG 21 61 1 CCAAGAAACTGGAAGATGGCGGCGAGGTTGAGAGA 21 106 1 GATTGTTAGACCGAGCCAACTTATTTAAAATTA 22 4 1 * ** * ** ** ** MAP Score: 14.4347 Motif 6 TCCTCTTTCAAACCAAAAAGCTTATTATTTCCGT 2 40 1 ACCTTCTGGAAGGCCAAAGTTTTTTTACCCACTC 5 14 1 TTTTGACAAAAAACAAAACATTTATTTGTTTTAA 6 27 0 GCAATATTAAAAACAAAAAATTTTTGTATTTCCC 7 90 1 CTAAGAGTTAAGTCAACAATTTTTACTTTTGCCA 7 139 0 TGCCTGGGCGAACCAAAACTTTTTAAAGCGCATG 10 65 1 CGTTTCCTGCAATCAAAATTCTTATATACCACTT 11 44 1 TTTGAAGCAAAAGCCAAACTCTTAA 12 1 0 AATGCGTTTGCAGCAAAAGGCTTTAAAAGCCACT 15 187 0 AAGAATTAAAAAGCTAAAAATTTTATGCAAATAA 16 30 0 AAAACCAAAGCTTTTTAATCATAAA 17 1 1 TGAGAAGTTCATTCCAAATAATTTTAAATAAGTT 22 27 0 AGCGGAATTAATCCGAAAAATTTTTACCTATATG 22 94 1 ** * *** **** MAP Score: 13.2635 Motif 7 AAGTAATTGCAACAAGAATACGTATTTGATTTGTAG 0 81 1 CTCCTCTTTCAAACCAAAAAGCTTATTATTTCCGTC 2 39 1 CCGGAAAGGAAAGCTGATAACTTTTTTAATCCACCG 3 133 1 AAAGCAATTATACCGTAAAAACTTTTGCACATTTTG 4 48 1 TATTTGTTTTAATCACAAAAATCGTAAAC 6 3 0 TTTTGTGATTAAAACAAATAAATGTTTTGTTTTTTG 6 19 1 CATCCAACCAAAACTTAAAAAATAATGAAGCACTTC 6 93 1 TACTGCCATCAACCTAAATAAACTTTCCTGAAGAAC 7 28 1 AAGCAATATTAAAAACAAAAAATTTTTGTATTTCCC 7 88 1 GAGACATGGCAAAAGTAAAAATTGTTGACTTAACTC 7 133 1 CCGAGCAGATAACCACAAAAGACTATGTGCTAGTTT 8 39 1 AATGCTGCCCAATCCAAAAAGCTCAAGGGCTTCCAT 8 122 0 GAACCCAGAAAAGATAAAAAGGTTTTGAAGCAAAAG 12 22 0 AAGAATTAAAAAGCTAAAAATTTTATGCAAATAAAT 16 28 0 ACGATTAATCAAAAAGAATAAATAATC 19 1 0 TAGCGGAATTAATCCGAAAAATTTTTACCTATATGA 22 93 1 ** * **** * ** MAP Score: 12.0927 Motif 8 TTTTACGTATTCTTGCAGTTCTATTTGAAAAAA 0 45 0 TAAACCCTTATTTTTCAGCCTACTATCCCTCCT 3 51 1 CCCTCCTAATTTTTGCTGCCCCACCATGATGGT 3 77 1 GCTTTTTGGATTGGGCAGCATTACAGATTGCAA 8 136 1 CAGAGAAGAATGGTGCAGCTCTCCGTCGCCTAT 8 191 1 GTCGCCTATATTTTGCAGCGCAAAGTATAAATC 8 215 1 GATAAAAAGGTTTTGAAGCAAAAGCCAAACTCT 12 13 0 GCTCCGTGTTGCAGCGTCCGTTAAATATA 14 26 0 TCAGACAGTATCTGGCAGTATTAAAAAACGGTT 15 44 1 TTTTAAAGCCTTTTGCTGCAAACGCATTCGTTT 15 193 1 GGTTTTAAACTCTTGCAGCCTGACAAAATCAAC 19 45 1 CTGAAGAGTTTCTGGCTGCGGTAGCTGCGATAA 21 26 1 ********* * MAP Score: 9.25225 Motif 9 CAAATACGTATTCTTGTTGCAATTACTTGG 0 79 0 ATCCCTCCAATTTTTGTTTGTGTACTCCTC 2 12 1 ATAATAAGCTTTTTGGTTTGAAAGAGGAGG 2 38 0 TCCCTCCTAATTTTTGCTGCCCCACCATGA 3 76 1 ATGGTATATGCTTTTGCATGTCAAAATTCC 3 105 1 AATCCTTCCGCTCTTGGTTGAGTCGAAGAT 4 87 0 ATTTTTTAAGTTTTGGTTGGATGGTGTGAA 6 86 0 CTTGACGATCCTCTGGTTGGGATAGACAGT 8 250 1 TGTTTGGTTGCGCAACGGTGC 9 22 0 GCTTTAAAAAGTTTTGGTTCGCCCAGGCAA 10 64 0 AAGAGTTTGGCTTTTGCTTCAAAACCTTTT 12 12 1 TTTTTATCTTTTCTGGGTTCAATTCTGTC 12 38 1 ATCCTCTCGGCTTTGGGAGCCGGTGACCCG 15 117 0 CTTTTAAAGCCTTTTGCTGCAAACGCATTC 15 192 1 GGGTTTTAAACTCTTGCAGCCTGACAAAAT 19 44 1 CCTGAAGAGTTTCTGGCTGCGGTAGCTGCG 21 25 1 ********** MAP Score: 8.96669 Motif 10 CTAAGTAGGGGCGGAATTAAAAAAGGTT 1 6 0 CCATCATGGTGGGGCAGCAAAAATTAGGAGGG 3 77 0 CTGAACAGCCGGTGGATTAAAAAAGTTATCAG 3 146 0 TAGGTTGATGGCAGTATCAAATCAAGGTGATG 7 12 0 TGAGGTGCAAGCAATATTAAAAACAAAAAATT 7 80 1 TTGAGACATGGCAAAAGTAAAAATTGTTGACT 7 131 1 TTTGGATTGGGCAGCATTACAGATTGCAAGCT 8 140 1 ACCTTGCCTGGGCGAACCAAAACTTTTTAAAG 10 61 1 AGAAGTAAAAGCTGTACTACAATGAACTCTTT 10 132 0 GCCGCGGAGTGGCGGACTACAGTCCCACGCTC 13 95 1 ACAGTATCTGGCAGTATTAAAAAACGGTTTTC 15 48 1 CATGAGGGAGGCAGGATTTAAATACTTCACCA 15 233 0 AAGTAATTACGCTATATTAAAGCTTTTAGCTA 18 23 1 ** * ******* MAP Score: 7.79968 Motif 11 TTTACCTTACGGAGAAGATTGACGTGCCCGAGCAGATAACCACA 8 12 1 GAACCTTAGTTAGGATGATGGAAGCCCTTGAGCTTTTTGGATTG 8 105 1 ATTCTTCTCTGTCCCTGTGAGAGGTGAGAGAGCTTGCAATCTGT 8 158 0 ACTTTGCGCTGCAAAATATAGGCGACGGAGAGCTGCACCATTCT 8 197 0 ACTTTTTAAAGCGCATGCTGGTGGTGGGAGTGATGAAAAAGTTC 10 82 1 TTTCCCGCCAGTTCAATGATGGGGCCGCCGAGATTTGAACTCGG 15 76 1 TCATTACAGAGGGGCCGTAGGGTAGCCTGGTGATCCTCTCGGCT 15 135 0 CGCCTGAAGAGTTTCTGGCTGCGGTAGCTGCGATAAATCGCTAT 21 23 1 GCTATCTGAGAGAGAAGGAGGGAGTGGTTGAGCTCAGGGAATAT 21 62 1 GAATATCCAAGAAACTGGAAGATGGCGGCGAGGTTGAGAGA 21 100 1 * * * * * ** * * * MAP Score: 6.89031 Motif 12 TTTTTTAATTCCGCCCCTACTTAGCTC 1 14 1 CCTTCCCTCACTCTCCCTCC 3 0 0 CTAATTTTTGCTGCCCCACCATGATGGTAT 3 82 1 GGACACCAGTCCCTGCTTGCCACAAGA 7 177 1 TGGTGCAGCTCTCCGTCGCCTATATTTTGC 8 201 1 TCATCACTCCCACCACCAGCATGCGCTTTA 10 88 0 AGCATTCAAGTCCCGCCTCCCGGATTTGAA 13 41 1 ACCATGGGATCTCCGCCTGCCGCGGAGTGG 13 77 1 GGACTGTAGTCCGCCACTCCGCGGCAGGCG 13 90 0 AGTATTTAAATCCTGCCTCCCTCATGACAG 15 239 1 TGAGCTCAACCACTCCCTCCTTCTCTCTCA 21 68 0 TCTCTCAACCTCGCCGCCATCTTCCAGT 21 113 0 ********** MAP Score: 0.206439 Motif 13 AGCTAAGTAGGGGCGGAATTAAAAAAGGTT 1 10 0 TTTCCGTCAAGGGAAGAGATTTT 2 67 1 GGAGGGAGAGTGAGGGAAGG 3 0 1 GAGGGAGAGTGAGGGAAGGTATTAAACTTT 3 11 1 CAAAATTCCGGAAAGGAAAGCTGATAACTT 3 126 1 ACTCAACCAAGAGCGGAAGGATTTTATAAA 4 94 1 GTCCCTGTGAGAGGTGAGAGAGCTTGCAAT 8 162 0 CACAGGGACAGAGAAGAATGGTGCAGCTCT 8 183 1 GCATGCTGGTGGTGGGAGTGATGAAAAAGT 10 94 1 AACGAAATTTGAAAGGAGGGTTAGAA 11 89 1 GTTCAAATCCGGGAGGCGGGACTTGAATGC 13 42 0 TCTGTCATGAGGGAGGCAGGATTTAAATAC 15 240 0 TAAAGTTTAGGAGGAGAAGG 17 31 1 TGAGAGAGAAGGAGGGAGTGGTTGAGCTCA 21 68 1 ********** MAP Score: 0.0520307