AlignACE 3.0 10/20/99 AlignACE2 -i AG/AG_operons008_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944242468 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 AF0645 232 translation initiation factor eIF-5A (eif5A) #5 AF0647 132 isocitrate dehydrogenase, NADP (icd) #6 AF0957 53 2-isopropylmalate synthase (leuA-1) #7 AF1014 126 dihydroxy-acid dehydratase (ilvD) #8 AF1252 194 oxaloacetate decarboxylase, subunit alpha (oadA) #9 AF1269 300 A. fulgidus predicted coding region AF1269 #10 AF1270 33 transcriptional regulatory protein, ArsR family #11 AF1720 182 acetolactate synthase, large subunit (ilvB-1) #12 AF1778 105 stage V sporulation protein (spoVG) #13 AF1779 57 2-hydroxyacid dehydrogenase, putative #14 AF1962 116 conserved hypothetical protein #15 AF1963 174 aconitase (acn) #16 AF1985 45 ketol-acid reductoisomerase (ilvC) #17 AF2009 101 heme biosynthesis protein (nirJ-2) #18 AF2010 46 A. fulgidus predicted coding region AF2010 #19 AF2011 175 conserved hypothetical protein #20 AF2013 275 coenzyme F390 synthetase (ftsA-3) #21 AF2014 63 sugar transporter, putative #22 AF2086 41 protease inhibitor, putative #23 AF2089 111 conserved hypothetical protein #24 AF2100 106 acetolactate synthase, large subunit (ilvB-4) #25 AF2199 82 3-isopropylmalate dehydratase, large subunit (leuC) #26 AF2216 131 methylmalonyl-CoA decarboxylase, biotin carboxyl carrier subunit (mmdC) #27 AF2219 137 methylmalonyl-CoA mutase, subunit alpha, C-terminus (mcmA2) Motif 1 TTTGGCTTTTGCTTCAAAACCTTTTTATCTTTT 13 17 1 GAGCGAATCTGCTTAAAAATCTT 15 161 1 TAAACTTTATGATTAAAAAGCTTTGGTTTT 22 7 0 TAAAGCCACCGATTTAAAAACCTTTTTTCAAAT 0 23 1 ACAGCCGGTGGATTAAAAAAGTTATCAGCTTTC 3 141 0 ACCAGCATGCGCTTTAAAAAGTTTTGGTTCGCC 11 71 0 TGCAAGCTAAGTTTTAAAAACTACTTACCTTTG 11 17 0 TCGATTTCAAGTTTAAAAACGCTTTTCAAAAGG 23 79 0 ATAACGAGTGGGTAAAAAAACTTTGGCCTTCCA 6 20 0 GCAGCAAAAGGCTTTAAAAGCCACTGCCTTTAA 20 179 0 TTAATAATAAGTTTTATAACCTTCACATCGAAA 19 142 1 TATGATTATAATTTTAAAAAGTTTGCTAAGGTT 24 75 0 GAACTATTTAGTTCCAAAAGGTTAAATATCTGG 17 28 0 AAATTTAAAGAATTAAAAAGCTAAAAATTTTAT 21 38 0 AGGGAGGCAGGATTTAAATACTTCACCATCCTG 20 228 0 AGGCTGCAAGAGTTTAAAACCCATCGAATACGA 24 33 0 CAGTGCCTGAGCTACATAACCTTCATCCGTCTC 19 46 0 TAGGGGCGGAATTAAAAAAGGTT 1 0 0 AATGCTGCCCAATCCAAAAAGCTCAAGGGCTTC 9 125 0 GAGCGGAAGGATTTTATAAACTACCACAACCTT 5 104 1 TGAATGCTTTGGTTTATATCCCTACTCATTTTT 15 16 0 * ** **** *** MAP Score: 21.4556 Motif 2 TGGGCGAACCAAAACTTTTTAAAGCGCATG 11 69 1 AAAACCAAAGCTTTTTAATCATAAAG 22 6 1 CACCGATTTAAAAACCTTTTTTCAAATAGA 0 29 1 CTTTTGCTTCAAAACCTTTTTATCTTTTCT 13 22 1 AGTGGCTTTTAAAGCCTTTTGCTGCAAACG 20 187 1 AATTAATCCGAAAAATTTTTACCTATATGA 27 99 1 ATTAAAAACAAAAAATTTTTGTATTTCCCA 8 95 1 TGAAGGTTATAAAACTTATTATTAAGCTTA 19 137 0 TTCAAACCAAAAAGCTTATTATTTCCGTCA 2 46 1 ACGCTATATTAAAGCTTTTAGCTAATGACC 23 31 1 ATTATACCGTAAAAACTTTTGCACATTTTG 5 54 1 CTGGAAGGCCAAAGTTTTTTTACCCACTCG 6 19 1 AAAAGCCTTAAATACTTTTTTAATGAACTC 25 15 0 TAACAAAAATAAAAATTTTACTATTTAGGC 18 11 0 TTAAAAAGCTAAAAATTTTATGCAAATAAA 21 29 0 AACCTTTTGAAAAGCGTTTTTAAACTTGAA 23 77 1 GTTCTTCAGGAAAGTTTATTTAGGTTGATG 8 34 0 AGGAAAGCTGATAACTTTTTTAATCCACCG 3 139 1 TCTTTTCCAGAGAACTTTTTCATCACTCCC 11 107 0 TCAACCTTAGCAAACTTTTTAAAATTATAA 24 73 1 ********** MAP Score: 17.0827 Motif 3 GAGCTAAGTAGGGGCGGAATTAAAAAAGGT 1 11 0 GGAGGGAGAGTGAGGGAAGGTAT 3 0 1 GCAAAAATTAGGAGGGATAGTAGGCTGAAAAAT 3 60 0 ATACCATCATGGTGGGGCAGCAAAAATTAGGAG 3 79 0 CTTGTGGCAAGCAGGGACTGGTGTCCGTCTCTA 8 170 0 CCCTGTGAGAGGTGAGAGAGCTTGCAATCTGTA 9 157 0 CTCACCTCTCACAGGGACAGAGAAGAATGGTGC 9 174 1 CGATCCTCTGGTTGGGATAGACAGTAGAAAATT 9 255 1 GCATGCTGGTGGTGGGAGTGATGAAAAAGTTCT 11 94 1 TTCGGCCCTCGGTGGGGCTGAAGCGTCGCCGAC 14 83 1 CGCCTGCCGCGGAGTGGCGGACTACAGTCCCAC 15 90 1 AGAGGTAGAGCGTGGGACTGTAGTCCGCCACTC 15 101 0 GATTAAGGGAGGGGCCCGATAGATTTGAAC 19 7 1 CCAGTTCAATGATGGGGCCGCCGAGATTTGAAC 20 83 1 TAATCATTACAGAGGGGCCGTAGGGTAGCCTGG 20 149 0 TGAGAGAGAAGGAGGGAGTGGTTGAGCTCAGGG 26 68 1 ******** * * MAP Score: 14.1833 Motif 4 AAATCCCTCCAATTTTTGTTTGTGTACT 2 4 1 AGCCTACTATCCCTCCTAATTTTTGCTGCCCCAC 3 67 1 ATCAGCTTTCCTTTCCGGAATTTTGACATGCAAA 3 117 0 AGAATTACCAGCTGCCCTGATTTGGCCCGTGAGG 4 38 1 AACAGAACCAGCCGTCTGATTTTTGCGAGCTTCA 4 133 1 ATTTTTGCGAGCTTCATGCTTTTTCTTCTCAGTC 4 151 1 ACCTTGCTGCCTAATTTTGCGTTAATTTA 4 213 0 GTTTACGATTTTTGTGATTAAAAC 7 0 1 TTTTAGAAGTGCTTCATTATTTTTTAAGTTTTGG 7 100 0 GCAGCTCTCCGTCGCCTATATTTTGCAGCGCAAA 9 205 1 GGGCTGAAGCGTCGCCGACTTTTTCCACA 14 97 1 TGGTTTATATCCCTACTCATTTTTTATACT 15 6 0 TTCAAGTCCCGCCTCCCGGATTTGAACCGGGGAC 15 45 1 ACCTTCATCCGTCTCCTCGATGTTCAAATCTATC 19 27 0 CAATGATGGGGCCGCCGAGATTTGAACTCGGGTC 20 89 1 ****** **** MAP Score: 11.3983 Motif 5 GCATATACCATCATGGTGGGGCAGCAAAAATTAGGAGGGA 3 76 0 ATGTCAAAATTCCGGAAAGGAAAGCTGATAACTTTTTTAA 3 122 1 CCCTGATTTGGCCCGTGAGGCCAGAGGTAAAGCAGTATTC 4 52 1 AGCGGAAGGTTGTGGTAGTTTATAAAATCCTTCC 5 108 0 TTGACGATCCTCTGGTTGGGATAGACAGTAGAAAATTTCC 9 251 1 TAAAGCGCATGCTGGTGGTGGGAGTGATGAAAAAGTTCTC 11 88 1 AATTTTGATTGCAGGAAACGTTAGATTAAATTACCACGCT 12 24 0 AGGTTAAATATCTGGATGCACAAGGAATGATAG 17 3 0 GATTAAGGGAGGGGCCCGATAGATTTGAACATCGAGGA 19 8 1 GGCTTTGGGAGCCGGTGACCCGAGTTCAAATCTCGGCGGC 20 99 0 CATTCGTTTTTCAGGATGGTGAAGTATTTAAATCCTGCCT 20 217 1 GTTGATTTTGTCAGGCTGCAAGAGTTTAAAACCCATCGAA 24 38 0 CTGAAGAGTTTCTGGCTGCGGTAGCTGCGATAAATCGCTA 26 26 1 ** ** *** ** * MAP Score: 10.7416 Motif 6 AAATACGTATTCTTGTTGCAATTACTTGGA 0 78 0 CCCTCCTAATTTTTGCTGCCCCACCATGAT 3 77 1 CAGAAGTCGTTCTGGCAGGAT 4 1 0 TAACGCAAAATTAGGCAGCAAGGT 4 218 1 TTAAACCTTCTGGAAGGCCAAAGTTTTT 6 8 1 TTTTTTAAGTTTTGGTTGGATGGTGTGAAG 7 85 0 GCTTTTTGGATTGGGCAGCATTACAGATTG 9 136 1 GTCGCCTATATTTTGCAGCGCAAAGTATAA 9 215 1 TTGACGATCCTCTGGTTGGGATAGACAGTA 9 251 1 TGTTTGGTTGCGCAACGGTGCA 10 21 0 TTAAAACTTAGCTTGCAGCAGTGCAATTAC 11 33 1 GATAAAAAGGTTTTGAAGCAAAAGCCAAAC 13 16 0 GCTCCGTGTTGCAGCGTCCGTTAAAT 16 29 0 AGGTTAAATATCTGGATGCACAAGGAATGA 17 13 0 TCAGACAGTATCTGGCAGTATTAAAAAACG 20 44 1 TTTTAAAGCCTTTTGCTGCAAACGCATTCG 20 193 1 GGTTTTAAACTCTTGCAGCCTGACAAAATC 24 45 1 CTGAAGAGTTTCTGGCTGCGGTAGCTGCGA 26 26 1 ********** MAP Score: 9.91703 Motif 7 TTGCATGTCAAAATTCCGGAAAGGAAAGCTGATAACTT 3 118 1 TTGTTGACTTAACTCTTAGAGACGGACACCAGTCCCTG 8 154 1 TTTTTACCTTACGGAGAAGATTGACGTGCCCGA 9 5 1 TTGCGCTGCAAAATATAGGCGACGGAGAGCTGCACCAT 9 200 0 TTTTTAAAGCGCATGCTGGTGGTGGGAGTGATGAAAAA 11 84 1 TAAGAATTTTGATTGCAGGAAACGTTAGATTAAATTAC 12 30 0 TCCCCGGTTCAAATCCGGGAGGCGGGACTTGAATGCTT 15 40 0 CCCACGCTCTACCTCTGAGCTAAGGCGGGTTCGATAGC 15 118 1 GATTAAGGGAGGGGCCCGATAGATTTGA 19 0 1 ATAGATTTGAACATCGAGGAGACGGATGAAGGTTATGT 19 28 1 AAGTAAAGAAGGATAAAGGAGCAGGCAGTCTTGTCGTA 19 101 1 TGATCCTCTCGGCTTTGGGAGCCGGTGACCCGAGTTCA 20 111 0 TTTAATCATAAAGTTTAGGAGGAGAAGG 22 23 1 ACGCCTGAAGAGTTTCTGGCTGCGGTAGCTGCGATAAA 26 22 1 ATAAATCGCTATCTGAGAGAGAAGGAGGGAGTGGTTGA 26 55 1 AGAAACTGGAAGATGGCGGCGAGGTTGAGAGA 26 109 1 GTGAGGTTTGAATTTTGGGCGATGAGAAGTTCATTCCA 27 45 0 * * ***** ** * MAP Score: 7.10879 Motif 8 CTTTTTGGTTTGAAAGAGGAGGAGTACACAAAC 2 27 0 GGAGGGAGAGTGAGGGAAGGTATTAAA 3 4 1 CCTCTCACAGGGACAGAGAAGAATGGTGCAGCT 9 178 1 ATGCTGGTGGTGGGAGTGATGAAAAAGTTCTCT 11 96 1 GGGCTTATTATGAGAGCGTGGTAATTTAATCTA 12 10 1 CCACTTTGTTTGAGAGTAACGAAATTTGAAAGG 12 72 1 GATTTGAACCGGGGACCATGGGATCTCCGCCTG 15 63 1 TCCGCCTGCCGCGGAGTGGCGGACTACAGTCCC 15 88 1 TAGCTCAGAGGTAGAGCGTGGGACTGTAGTCCG 15 107 0 TGAACATCGAGGAGACGGATGAAGGTTATGTAG 19 35 1 AATCGCTATCTGAGAGAGAAGGAGGGAGTGGTT 26 58 1 ****** * *** MAP Score: 6.83409 Motif 9 ATTCAAGTCCCGCCTCCCGGATTTGAACCGGGGACCATGGGATCTC 15 44 1 ATCGCAGCTACCGCAGCCAGAAACTCTTCAGGCGTCATTTTACCAC 26 11 0 ACCATCACCTTGATTTGATACTGCCATCAACCTAAATA 8 2 1 ATCCTGCCAGAACGACTTCTGGAATCCGAGAATTAC 4 0 1 AATATTCTGTATACGCCATGAATAATTTCGGCCCTCGGTGGGGCTG 14 57 1 CACCGGCTCCCAAAGCCGAGAGGATCACCAGGCTACCCTACGGCCC 20 122 1 GCAAAGTATAAATCTCCTTGACGATCCTCTGGTTGGGATAGACAGT 9 234 1 GAGAATTACCAGCTGCCCTGATTTGGCCCGTGAGGCCAGAGGTAAA 4 37 1 TTACTCCTGAAAGCACCATGAAGTAGAACAGAACCAGCCGTCTGAT 4 107 1 * * ** ** * ** * MAP Score: 4.87517 Motif 10 TTTGGTTTGAAAGAGGAGGAGTACACAAACAA 2 25 0 GGAGGGAGAGTGAGGGAAGGTATTA 3 3 1 GAAACCTGAACAGCCGGTGGATTAAAAAAG 3 153 0 CGACTCAACCAAGAGCGGAAGGATTTTATAAA 5 92 1 AGCGGAAGGTTGTGGTAGTTTATAA 5 117 0 TGCAAAATATAGGCGACGGAGAGCTGCACCAT 9 200 0 TCTTTTCTAAAGGAGTTAGAGGTGGTTTTAA 11 161 1 TGTGGAAAAAGTCGGCGACGCTTCAGCC 14 98 0 GCCACTCCGCGGCAGGCGGAGATCCCATGGTC 15 76 0 TTGAACATCGAGGAGACGGATGAAGGTTATGT 19 34 1 AGAAGGATAAAGGAGCAGGCAGTCTTGTCGTA 19 107 1 TCTCGGCTTTGGGAGCCGGTGACCCGAGTTCA 20 111 0 CATAAAGTTTAGGAGGAGAAGG 22 29 1 CGCTATCTGAGAGAGAAGGAGGGAGTGGTTGA 26 61 1 CCAAGAAACTGGAAGATGGCGGCGAGGTTGAG 26 106 1 ***** ***** MAP Score: 4.81749 Motif 11 CTCCTCTTTCAAACCAAAAAGCTTATTATTTCCGT 2 39 1 ACCTTCTGGAAGGCCAAAGTTTTTTTACCCACTCG 6 14 1 TTTTGACAAAAAACAAAACATTTATTTGTTTTAAT 7 26 0 CTTTCCTGAAGAACGTAAATCTTGATCTTTTGAGG 8 50 1 AGCAATATTAAAAACAAAAAATTTTTGTATTTCCC 8 89 1 AATGCTGCCCAATCCAAAAAGCTCAAGGGCTTCCA 9 123 0 TTGCCTGGGCGAACCAAAACTTTTTAAAGCGCATG 11 64 1 CGTTTCCTGCAATCAAAATTCTTATATACCACTTT 12 44 1 TTTGAAGCAAAAGCCAAACTCTTAA 13 0 0 ATATTTTTTGAACAAAAACCGTTATCTAATTTGAC 14 27 0 GTAGGGATATAAACCAAAGCATTCAAGTCCCGCCT 15 24 1 TAACCTTTTGGAACTAAATAGTTCATACATAGGAA 17 37 1 CATGCTAACAAAAATAAAAATTTTACTATTTAGGC 18 11 0 AAGAATTAAAAAGCTAAAAATTTTATGCAAATAAA 21 29 0 AAAACCAAAGCTTTTTAATCATAAAG 22 1 1 GCTTTTCTAAGAAACAAACGGTTAACTTAAAAAGC 25 39 1 **** *** ** * MAP Score: 3.85355 Motif 12 AAGCTTATTATTTCCGTCAAGGGAAGAGAT 2 57 1 TTTCCTACAAAGGTAAGTAG 11 0 1 TAATCTAACGTTTCCTGCAATCAAAATTCT 12 36 1 GAGTTTGGCTTTTGCTTCAAAACCTTTTTA 13 14 1 TTTATCCTTCTTTACTTCAAGTGTAAAAAT 19 88 0 TTTAAAGCCTTTTGCTGCAAACGCATTCGT 20 194 1 ********** MAP Score: 1.88314 Motif 13 TAGGGGCGGAATTAAAAAAGGTT 1 0 0 GAGCTAAGTAGGGGCGGAATTAAA 1 17 0 TCTGAAGAAGAGTTAAAAATGCGACTGAGAAGA 4 174 0 CAATATTAAAAACAAAAAATTTTTGTATTTCCC 8 91 1 GACATGGCAAAAGTAAAAATTGTTGACTTAACT 8 135 1 TCACAGGGACAGAGAAGAATGGTGCAGCTCTCC 9 182 1 TTTCCTACAAAGGTAAGTAGTTTTTAAAACTTA 11 10 1 ACAAAGTGGTATATAAGAATTTTGATTGCAGGA 12 48 0 AACCCAGAAAAGATAAAAAGGTTTTGAAGCAAA 13 24 0 ATGCTAACAAAAATAAAAATTTTACTATTTAGG 18 12 0 TTACACTTGAAGTAAAGAAGGATAAAGGAGCAG 19 92 1 ATCTGGCAGTATTAAAAAACGGTTTTCCCGCCA 20 53 1 AGAATTAAAAAGCTAAAAATTTTATGCAAATAA 21 30 0 TTGAGAGTTCATTAAAAAAGTATTTAAGGCTTT 25 11 1 GTTGTCATATAGGTAAAAATTTTTCGGATTAAT 27 100 0 ** ******* * MAP Score: 1.61096