AlignACE 3.0 10/20/99 AlignACE2 -i AG/AG_operons007_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944242394 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 AF0154 139 conserved hypothetical protein #1 AF0155 62 A. fulgidus predicted coding region AF0155 #2 AF0355 51 ferredoxin (fdx-3) #3 AF0471 125 2-ketoglutarate ferredoxin oxidoreductase, subunit gamma (korG) #4 AF0688 228 iron-sulfur cluster binding protein #5 AF0748 47 A. fulgidus predicted coding region AF0748 #6 AF0923 217 ferredoxin (fdx-5) #7 AF1263 74 iron-sulfur cluster binding protein #8 AF1489 166 indolepyruvate ferredoxin oxidoreductase, subunit alpha (iorA) #9 AF1643 50 conserved hypothetical protein #10 AF1644 35 tungsten formylmethanofuran dehydrogenase, subunit F (fwdF) #11 AF1695 50 thiamine biosynthesis protein (apbA) #12 AF1696 28 small multidrug export protein (qacE) #13 AF1697 49 conserved hypothetical protein #14 AF1699 102 pyruvate ferredoxin oxidoreductase, subunit gamma (porG) #15 AF2029 95 conserved hypothetical protein #16 AF2030 31 indolepyruvate ferredoxin oxidoreductase, subunit beta (iorB) #17 AF2055 32 2-ketoisovalerate ferredoxin oxidoreductase, subunit gamma (vorG) #18 AF2056 35 conserved hypothetical protein #19 AF2145 74 glutaredoxin (grx-2) #20 AF2146 44 GTP-binding protein #21 AF2147 96 A. fulgidus predicted coding region AF2147 Motif 1 AGGTTTTGAGGAAATTTTTCAATTCCACGGAGGAAA 6 155 0 GACAGAAGGGGAAACGTTTTAATTCCTCTTATAAAC 8 133 1 CTCAACTCTAAAACCTTTTAAACACCCTTGCCGAAG 9 17 0 AAAGCTAAAAAAATATTTTAAATGCCGATTCTGGTT 14 25 0 AATTAACGGAAAAGGTTTTGAAAGCTAAAAAAATAT 14 45 0 TATTCCGCATGAAATTTTATAAATCTTTCCTATATA 3 92 0 AAGTTGCCGGGAACTTTTAAAAATCTCGCCCGAACT 5 16 0 TTCCACGGAGGAAAATTTTTAATGTTTAAGAAAGAA 6 133 0 CATCGCAAATGAAGAATATAAACCCCACCGGAAACG 15 38 1 TTGCTCAGATAAAGGATTTTAATCCGATTTTCCTTA 20 18 1 CAAAGGGTTAAAAGGCTAAGAATAAAG 10 1 1 TGAATGCTCTAAAATCCTGCGGATTTA 21 1 1 TCAAAAAGGTAATTACTTTTAAATCCGCAGGATTTT 21 20 0 AGGCCAACCAAAAACTTTTTAAATTTAGGCTATCCT 0 103 1 TCAATATAGTAAATTTTTTTAAAATTAAAAATTGAC 4 18 0 TCAGAGAACCGATAACTTAAAATACCTCTCCACTAC 8 62 0 GTTTAAGAAAGAACAATTCTATGGCCGTTGTCTATG 6 110 0 AACCCCACCGGAAACGTTTAATACTTCCTCGATTTT 15 58 1 CTTCATTTGCGATGTATTCAAAAACTCGAAAATTTT 15 16 0 ACCAAAACCTTATATTTTCTGCGTGTTAA 18 3 1 *** *** ** ** MAP Score: 22.9116 Motif 2 TTTAACATTATAAGCATTATGCATTTTTGATTGCATT 0 51 1 TAGGCCAACCAAAAACTTTTTAAATTTAGGCTATCCT 0 102 1 ACTTTGCAAGTAAAATTTATTTACTATTATTCGCAAT 2 17 0 AATATATAGGAAAGATTTATAAAATTTCATGCGGAAT 3 90 1 TCAATATAGTAAATTTTTTTAAAATTAAAAATTGACA 4 17 0 CGCAAATGCTATAGATTTGTATAGTATATGATGAGCT 4 157 0 AGCATTTGCGATATAGTTATATAATTTGCGGAGAAAA 4 184 1 TGTTCTTTCTTAAACATTAAAAATTTTCCTCCGTGGA 6 131 1 TTATTTTTCGAAACATGTATCGAATTTT 6 199 1 CGCAAATGCTATAGATTTATATAGTATGGG 7 3 0 AGCATTTGCGATATTGTTATATAATTTGTGGAGAAAA 7 30 1 AAGGGTGTTTAAAAGGTTTTAGAGTTGAGCGAATTT 9 24 1 GCTTTAAGGTTCTGCAGTTTTCCCAATAAA 13 29 0 TCGGCATTTAAAATATTTTTTTAGCTTTCAAAACCTT 14 33 1 ATATAAAAAATTTTCGAGTTTTTGAATACAT 15 4 1 TTAAAAGTAATTACCTTTTTGAACTTTCTTTTTTATA 21 34 1 *** ** * * *** MAP Score: 19.3065 Motif 3 ACTGTTAGGTAACAGTGTTTGGGGTGGTGATG 0 12 0 GTTGGCCTAAAATCGGTTTTGAAAATGCAATC 0 79 0 CCTAAATTTAAAAAGTTTTTGGTTGGCCTAAA 0 100 0 AATTGCGAATAATAGTAAATAAATTTTACTTG 2 16 1 TATAGATTTGTATAGTATATGATGAGCTACAG 4 153 0 ATTTGCGGAGAAAAGGCTATGAGGTGAAAGC 4 207 1 ATTTGTGGAGAAAAGGCTATGAGGTGAAAGC 7 53 1 GGCAGTTTATAAGAGGAATTAAAACGTTTCCC 8 141 0 AAGGGTGTTTAAAAGGTTTTAGAGTTGAGCGA 9 24 1 CAAAGGGTTAAAAGGCTAAGAATAAAGGTGT 10 9 1 TTACGAAACCAAAAGTTTATTGGGAAAACTGC 13 14 1 ATTCAACCAGAATCGGCATTTAAAATATTTTT 14 21 1 AAATTAACGGAAAAGGTTTTGAAAGCTAAAAA 14 50 0 CGCAGAAAATATAAGGTTTTGGT 18 1 0 TAAATGCTTTTACCGGTTTTGACAAAATCGGT 19 15 0 ATTGCTCAGATAAAGGATTTTAATCCGATTTT 20 17 1 AGAAAGTTCAAAAAGGTAATTACTTTTAAATC 21 31 0 ** *** ***** MAP Score: 13.1195 Motif 4 GCTCAAGCTTCGGCAAGGGTGTTTAAAAGGTTTTAG 9 5 1 TAATTTGCGGAGAAAAGGCTATGAGGTGAAAGC 4 205 1 TAATTTGTGGAGAAAAGGCTATGAGGTGAAAGC 7 51 1 CTCCTTAGGGAGTAGTGGAGAGGTATTTTAAGTTATCGGTT 8 51 1 CCAGCCTCAGTTTTGAACTGGGCATTTAAAT 16 2 0 GCCTAAAATCGGTTTTGAAAATGCAATCAAAAATGCATAAT 0 66 0 AGAATAAAAAATTAACGGAAAAGGTTTTGAAAGCTAAAAAA 14 49 0 GAAGCAAGTTCGGGCGAGATTTTTAAAAGTTCCCGGC 5 6 1 TATTAAGATTGCTCAGATAAAGGATTTTAATCCGATTTTC 20 9 1 AATCTATAGCATTTGCGATATAGTTATATAATTTGCGGAGA 4 177 1 AATCTATAGCATTTGCGATATTGTTATATAATTTGTGGAGA 7 23 1 GGCGGCAGTTTATAAGAGGAATTAAAACGTTTCCCCT 8 139 0 AAATCAGGGAGGTTTTGAGGAAATTTTTCAATTCCACGGAG 6 159 0 GTTGGGAGTAATATATAGGAAAGATTTATAAAATTTCATGC 3 81 1 AGCGGATACAGAACGGTAGCAGATATAAAAAT 17 2 0 AGAAATGGGCAGGAAAATTGATGTTTTGCAAGACAGCATGA 4 83 0 AGATCGGGCCGGAAGTGGTGATGCGGTTCTACGACCCGAAA 6 66 0 ** * ** * * * ** MAP Score: 11.7428 Motif 5 TAGGCCAACCAAAAACTTTTTAAATTTAGGCTATCCTAAA 0 102 1 CCTTTTCCCTAAAATCTTCGAATATGAAAAAAA 1 3 0 GAATAATAGTAAATAAATTTTACTTGCAAAGTTGAAATA 2 22 1 AATATATAGGAAAGATTTATAAAATTTCATGCGGAATATT 3 90 1 TCAATATAGTAAATTTTTTTAAAATTAAAAATTGACACCA 4 14 0 TATACTATACAAATCTATAGCATTTGCGATATAGTTATAT 4 166 1 ATTTGCGGAGAAAAGGCTATGAGGTGAAAGC 4 207 1 TGACACTCTGAAATTTGGTGCATGTGCCGGTGGAATAAGG 6 10 0 CATACTATATAAATCTATAGCATTTGCGATATTGTTATAT 7 12 1 ATTTGTGGAGAAAAGGCTATGAGGTGAAAGC 7 53 1 AGGGTGTTTAAAAGGTTTTAGAGTTGAGCGAATTT 9 25 1 GTTTATTGGGAAAACTGCAGAACCTTAAAGC 13 28 1 TGAAAGCTAAAAAAATATTTTAAATGCCGATTCTGGTTGA 14 23 0 GAGGATGCTTAAAAGAATAAAAAATTAACGGAAAAGGTTT 14 63 0 ATATAAAAAATTTTCGAGTTTTTGAATACATCGCA 15 5 1 ACCCCACCGGAAACGTTTAATACTTCCTCGATTTTTTGAT 15 59 1 AAAACCGGTAAAAGCATTTATATATGGACGTCTCAGTTAA 19 27 1 AATTACTTTTAAATCCGCAGGATTTTAGAGCATTCA 21 6 0 *** ** * ** ** MAP Score: 11.4677 Motif 6 CGAAGATTTTAGGGAAAAGGTAGATGTTGA 1 23 1 TATAATTTGCGGAGAAAAGGCTATGAGGTG 4 203 1 AAAGGCTATGAGGTGAAAGC 4 218 1 ACCCGAAATACGGGACAAGGTCCTTGACAC 6 44 0 TATAATTTGTGGAGAAAAGGCTATGAGGTG 7 49 1 AAAGGCTATGAGGTGAAAGC 7 64 1 CACAGACAGAAGGGGAAACGTTTTAATTCC 8 129 1 CAAAGGGTTAAAAGGCTAAGAATAA 10 5 1 TAAAAAATTAACGGAAAAGGTTTTGAAAGC 14 56 0 TTGTCAAAACCGGTAAAAGCATTTATATAT 19 22 1 ********** MAP Score: 6.85862 Motif 7 AGCATTATGCATTTTTGATTGCATTTTCAAAA 0 63 1 TTTTGATTGCATTTTCAAAACCGATTTTAGGC 0 75 1 CCAACCAAAAACTTTTTAAATTTAGGCTATCC 0 106 1 TTCCGCATGAAATTTTATAAATCTTTCCTATA 3 94 0 TATTGGTGTCAATTTTTAATTTTAAAAAAATT 4 11 1 TTCGGGCGAGATTTTTAAAAGTTCCCGGCAAC 5 18 1 CACGGAGGAAAATTTTTAATGTTTAAGAAAGA 6 134 0 TTTTGAGGAAATTTTTCAATTCCACGGAGGAA 6 156 0 CCCTGATTTTATTTTTCGAAACATGTATCGAA 6 191 1 TGTGCTTTTTAATTTTGAAATTTTATCTGCCC 8 101 0 GCTAAAAAAATATTTTAAATGCCGATTCTGGT 14 26 0 ATATTTTTTTAGCTTTCAAAACCTTTTCCGTT 14 45 1 CTTTTCCGTTAATTTTTTATTCTTTTAAGCAT 14 67 1 AAAACTCGAAAATTTTTTATAT 15 0 0 AAATTTTCGAGTTTTTGAATACATCGCAAATG 15 17 1 CCCCACCGGAAACGTTTAATACTTCCTCGATT 15 60 1 TACTTCCTCGATTTTTTGATTCTGAA 15 79 1 ATTTTTATATCTGCTACCGTTC 17 0 1 AAAGGTAATTACTTTTAAATCCGCAGGATTTT 21 20 0 ****** *** * MAP Score: 5.10565 Motif 8 TCTTTCCTATATATTACTCCCAACCCTTCAG 3 74 0 AGATTTATAAAATTTCATGCGGAATATTTAA 3 102 1 CAAAACATCAATTTTCCTGCCCATTTCTTCC 4 96 1 AACATTAAAAATTTTCCTCCGTGGAATTGAA 6 143 1 AATTTTGAAATTTTATCTGCCCATTTCAGAG 8 92 0 TAAAAAAATATTTTAAATGCCGATTCTGGTT 14 25 0 ATTTAAATGCCCAGTTCAAAA 16 0 1 CAAAACCTTATATTTTCTGCGTGTTAAGGCA 18 12 1 CAGATAAAGGATTTTAATCCGATTTTCCTTA 20 23 1 AGGTAATTACTTTTAAATCCGCAGGATTTTA 21 19 0 ***** ***** MAP Score: 4.89323 Motif 9 GATGTATTCATCTGAAGGGTTGGGAGTAAT 3 63 1 GTTTAAATATTCCGCATGAAATTTTATAAA 3 105 0 TGATGGAGGAGCTGCTGGAAGGCTGGAAGA 4 121 0 TGAGCTACAGTCTGATGGAGGAGCTGCTGG 4 133 0 TGGTGCATGTGCCGGTGGAATAAGG 6 5 0 GGAGGCTACGGCCGCTGGGACTACGGGGTG 8 15 0 CCCTAAGGAGTCCGTAGGAGGCTACGGCCG 8 31 0 AAATGCCGATTCTGGTTGAATTCTGATTCA 14 12 0 ATTAAACGTTTCCGGTGGGGTTTATATTCT 15 50 0 TACTTTTAAATCCGCAGGATTTTAGAGCAT 21 13 0 ********** MAP Score: 4.30149 Motif 10 AGGCTGGAAGAAATGGGCAGGAAAATTGATGT 4 100 0 ATTTGCGGAGAAAAGGCTATGAGGTGAAAGC 4 207 1 TTCGGGTCGTAGAACCGCATCACCACTTCCGG 6 67 1 ATTTGTGGAGAAAAGGCTATGAGGTGAAAGC 7 53 1 CGGTTCTCTGAAATGGGCAGATAAAATTTCAA 8 87 1 CAAAGGGTTAAAAGGCTAAGAAT 10 1 1 GTTTATTGGGAAAACTGCAGAACCTTAAAGC 13 28 1 ATTTAAATGCCCAGTTCAAAACTGAG 16 4 1 AGCGGATACAGAACGGTAGCAGATATAAAAA 17 11 0 GGTTTTGACAAAATCGGTAAAAA 19 1 0 GATTTTGTCAAAACCGGTAAAAGCATTTATAT 19 18 1 AATTACTTTTAAATCCGCAGGATTTTAGAGCA 21 14 0 *** ****** * MAP Score: 1.75808