AlignACE 3.0 10/20/99 AlignACE2 -i AG/AG_operons011_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944242630 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 AF0079 69 A. fulgidus predicted coding region AF0079 #1 AF0080 27 acetylornithine aminotransferase (argD-1) #2 AF0667 69 A. fulgidus predicted coding region AF0667 #3 AF0669 35 4-oxalocrotonate tautomerase, putative #4 AF0700 41 aspartate kinase (lysC) #5 AF0703 38 A. fulgidus predicted coding region AF0703 #6 AF0909 31 dihydrodipicolinate reductase (dapB) #7 AF0911 24 SSU ribosomal protein S17E (rps17E) #8 AF0912 51 A. fulgidus predicted coding region AF0912 #9 AF0913 144 A. fulgidus predicted coding region AF0913 #10 AF1147 65 glutamate N-acetyltransferase (argJ) #11 AF1241 81 glutamate-1-semialdehyde aminotransferase (hemL) #12 AF1280 272 acetylglutamate kinase (argB) #13 AF1495 73 conserved hypothetical protein #14 AF1506 30 aspartate-semialdehyde dehydrogenase (asd) #15 AF1507 62 A. fulgidus predicted coding region AF1507 #16 AF1508 61 A. fulgidus predicted coding region AF1508 #17 AF1510 24 long-chain-fatty-acid--CoA ligase (fadD-6) #18 AF1512 71 conserved hypothetical protein #19 AF1513 257 A. fulgidus predicted coding region AF1513 #20 AF1610 300 conserved hypothetical protein #21 AF1612 63 cationic amino acid transporter (cat-1) #22 AF1814 83 A. fulgidus predicted coding region AF1814 #23 AF1815 36 acetylornithine aminotransferase (argD-2) #24 AF2071 60 N-acetyl-gamma-glutamyl-phosphate reductase (argC) #25 AF2252 78 argininosuccinate synthetase (argG) #26 AF2327 72 shikimate 5-dehydrogenase (aroE) Motif 1 TAGTAGCCTTGAAAAATCTTTAGATTGGAGCG 12 112 0 AGGAAAAATATTTAATGATTTATT 23 2 1 CATTTAATGGGAAAAAACTTAAATAAAATGA 11 9 0 AAAAAAGAAAGGAAAACTTTAAATAGTAATTA 19 220 1 GAGGAAAAGGTTAAGAGGCAAAAT 24 46 0 GTGGGTATATGCAAAATTTTAAATTTTCGGTT 9 37 1 TTTCCCGTATGAAAACTGTTTAAAATCGTCGA 20 119 1 CGCCATCTCAGAAAACTCTTTATTTTGCCTCT 24 25 1 TTCTCAGCAAGAAAACATTTAAAACGAATTGG 11 47 1 AAGGTTACCGTAAAAAATTTTAAGGTATAAGT 0 35 1 CAGTTGTAAAGAAACAAATTTAGCTGACGGAG 22 55 0 ATACCTTTCTGAACAAGCTTTAAATACATCCG 13 25 0 TTGTTTAATCTCAAAAGATTTAAACCTCTCCG 25 42 1 TAAAATCGTCGAAAAATTTAAATGTCAAAGGA 20 139 1 CTTTTTTGAAAGAAAATTTTAAGATTAATTTG 8 16 1 AAAAACTTTCTGAAAATTTTAATTTACCTGCT 10 31 1 GAAACATGTCGCAAAATTTAAATACTTTGCTA 2 16 1 GGAAAAAATTTTGCTGAGTAAT 1 15 0 AAAAACGTTTTATTACCCAATT 3 0 1 TTACCGCTCCGAAAACCCTTTTTTACTGCATG 26 37 1 ****** **** MAP Score: 22.1947 Motif 2 ACTTAATTACTCAGCAAAATTTTTTC 1 4 1 GTGAAATTAAAAACTTTCTGAAAATTTTAATT 10 23 1 ATTTTAATTTACCTGCTCAGAATTGGTTC 10 46 1 TTAAATGGGAACATTCTCAGCAAGAAAACATT 11 34 1 GCTTCGCTCTCTCCAATTCGTTTTA 11 66 0 TCAAGGCTACTACCATTCAGCAGCTTTACAAT 12 132 1 GCAGCTTTACAATTGCTCAGCAGATTGCCTGA 12 151 1 CCTGCTATAATACCTTTCTGAACAAGCTTTAA 13 34 0 GCGTGCGCCTTACCGCTCGGCAACCCCGGCCT 19 34 0 GCGAACGCCCACACGCTCTCCAGGCGTGCGCC 19 57 0 AAAAGTTGGAAAACGCTCCGAATTTGGATATT 20 241 1 AAAAGATTTAAACCTCTCCGCATGACGGGATT 25 54 1 GATAAATACTTACCGCTCCGAAAACCCTTTTT 26 28 1 ** ***** *** MAP Score: 13.8313 Motif 3 TTTACGGTAACCTTTTTGAGTGTCGGTGGT 0 19 0 ATTCTCACCTCCTATTTGAAATATGTTTCA 2 49 0 TTTATCTCCGCCGATTTAAAGTTCAGGT 5 8 0 CGCAACCGTTTTTATCTCCGCCGAT 5 23 0 TAATTTCTTTTTTGAAAGAAAATTTT 8 6 1 CGCTTAACCTCCTTTTTAAGAAGTGGGTAT 9 15 1 ATTTCACCTTCCGAATTGAA 10 0 0 GCCATCCACGCCGATTTTGGGAATCCAGGC 12 183 1 ACATCCGGCTCTTTTTTTAATC 13 2 0 TGCTATAATACCTTTCTGAACAAGCTTTAA 13 34 0 CTTTTTTAAATTGCCCCCTG 14 0 1 TTTATGCTTGCTTTTTTGGAAATTCCACAG 19 159 0 GTTTTCCTTTCTTTTTTGATTGATTATTAT 19 207 0 TATCAAAAGGCTGTTTTGGAAAATTTCTGT 20 73 0 TCTCTTTTCCATTTTGGATTTTCAAATC 21 8 1 TATAAGCTTGCCGATTTGAAAATCCAAAAT 21 20 0 CGATACTCTGCCGCTTTGGATAAATACTTA 26 10 1 ********** MAP Score: 10.4627 Motif 4 AAAAAGGTTACCGTAAAAAATTTTAAGGTATAAGTT 0 32 1 TACTTTGCTATTGAAACATATTTCAAATAGGAGGTG 2 38 1 ACCGTTTTTATCTCCGCCGATTTAAAGTTCAGGT 5 8 0 TTTTATATACTCCAGCTCAATTTTATTT 6 13 1 CTTCCCGCTTAACCTCCTTTTTAAGAAGTGGGTA 9 8 1 AATTAAAATTTTCAGAAAGTTTTTAATTTCACCTTC 10 19 0 CTTCGCTCTCTCCAATTCGTTTTAAATGTTTTCTTG 11 54 0 TCCGCTCCAATCTAAAGATTTTTCAAGGCTACTACC 12 110 1 ATTTTGGGAATCCAGGCAGTTTTTAACACTTGCCTC 12 196 1 TTTAAATACATCCGGCTCTTTTTTTAATC 13 3 0 TTTTTCGTATTAATTTTTAATAAATGGAAA 16 4 1 CTTTTTTCGAATTATTTTCTAAACGACTGCAC 18 6 1 GAAAATTACTTCTGTGGAATTTCCAAAAAAGCAAGC 19 148 1 TTTGGAAAATTTCTGTTATATTTTAATTGGTTTGGT 20 53 0 ACATTTAAATTTTTCGACGATTTTAAACAGTTTTCA 20 128 0 TAATCTCATGTCCTTTGACATTTAAATTTTTCGACG 20 145 0 ATATCCAAATTCGGAGCGTTTTCCAACTTTTATGCC 20 236 0 CTCTGAAAACCCAGGAAGTTTTTTAACTTTTGTTTA 25 13 1 TTTTGTTTAATCTCAAAAGATTTAAACCTCTCCGCA 25 40 1 ** * ******* MAP Score: 10.0229 Motif 5 ATTCTCACCTCCTATTTGAAATA 2 56 0 CCTATTTCCTGCCCTAAGCAAGAAA 4 26 0 CGCAACCGTTTTTATCTCCGCCGATTTAAA 5 18 0 CGTCAAAGGTTTTTAACCCCTCGTATAATCA 9 118 1 ATTCAGCCCCGGCTATGAGGC 19 0 1 TGGGTTCGAATCCCACCCCCGGCGCTGTTGT 19 94 1 AAAACTGGATTTTTAACTCCTTTTCGCGCCA 20 20 0 CTGGAAATAATCTCATGTCCTTTGACATTTA 20 157 0 CTCCATTTTTTCTCACCTCCTGAAGGAAATA 20 269 0 ATCGGCAAGCTTATATCTCCGTAACCTTACA 21 35 1 CTCCGTAACCTTACAAGCCCTA 21 51 1 GGATAAATACTTACCGCTCCGAAAACCCTTT 26 27 1 ***** ***** MAP Score: 9.42099 Motif 6 CCTATTTCCTGCCCTAAGCAAGAAAT 4 25 0 GTTACATCATCATTCCCTGCTTTGCATAGGCAAT 9 66 1 TTTTTAATTTCACCTTCCGAATTGAA 10 2 0 TAAATGGGAACATTCTCAGCAAGAAAACATTTAA 11 35 1 ATCGCGGGTTCAAATCCCGCCGGGTCCGCTCCAA 12 86 1 CCTGGATTCCCAAAATCGGCGTGGATGGCTCAGG 12 178 0 TTTTAACACTTGCCTCCAGCAATGCGGTCTGATA 12 216 1 TAATTCTTCACACAACCTGCTATAATACCTTTCT 13 47 0 ATTCAGCCCCGGCTATGAGGCGTTAGG 19 3 1 TACCGCTCGGCAACCCCGGCCTAACGCCTCATAG 19 22 0 GTTCGAATCCCACCCCCGGCGCTGTTGTATCTTG 19 97 1 GACATGAGATTATTTCCAGCCAGATTCGTGTGGT 20 169 1 CATTTTTTCTCACCTCCTGAAGGAAATATCCAAA 20 263 0 ** **** ** ** MAP Score: 7.02254 Motif 7 AGTATTTAAATTTTGCGACATGTTTCAAAT 2 12 0 AACCGTTTTTATCTCCGCCGATTTAAAGTT 5 15 0 ACTGGGAGTTCCGCAAATTAATCTTA 8 35 0 TAAATTAAAATTTTCAGAAAGTTTTTAATT 10 27 0 GAACCAATTCTGAGCAGGTAAATTAAA 10 48 0 AATGGGAACATTCTCAGCAAGAAAACATTT 11 37 1 GCTCTATCCATGCTGAGCCACGGGCCCTTA 12 36 0 TCAGGCAATCTGCTGAGCAATTGTAAAGCT 12 153 0 TATAATACCTTTCTGAACAAGCTTTAAATA 13 31 0 AGCTTTATTATTCTCAACCAGATTGTTTCT 18 51 1 TTTAACTCCTTTTCGCGCCAGTTGGGAGAA 20 10 0 AAAAATCCAGTTTTCAACCAAACCAATTAA 20 37 1 CATGAGATTATTTCCAGCCAGATTCGTGTG 20 171 1 ATAGCCCTACTTTTCCACCAATTTTGGTGG 22 15 0 AACTTTCGCCATCTCAGAAAACTCTTTATT 24 19 1 ********** MAP Score: 4.50155 Motif 8 AAAACATTTAAAACGAATTGGAGAGAGCGAAGC 11 58 1 CACGGGCCCTTAAGGGTAGGGGGGCATTGGTGT 12 15 0 GGTTGAAGGACAGGGGGCAATTTAAAA 14 13 0 CGGGGTTGCCGAGCGGTAAGGCGCACGCCTGGA 19 38 1 CACGCCTGGAGAGCGTGTGGGCGTTCGCCCGCG 19 61 1 CTCCCAACTGGCGCGAAAAGGAGTTAAAAATCC 20 12 1 AGAAAAAATGGAGGGTGATGGCG 20 287 1 TAGGGCTTGTAAGGTTACGGAGATATAAGCTT 21 41 0 ***** * **** MAP Score: 3.63826 Motif 9 ATATTGTATGGTTGGCATCACGCC 7 5 1 AAAATTTTAAGATTAATTTGCGGAACTCCCAGT 8 28 1 CCGTGGCTCAGCATGGATAGAGCGACGGCCTTCTAAGCC 12 43 1 GCAGCTTTACAATTGCTCAGCAGATTGCCTGAGCCATCC 12 151 1 ATTCAGCCCCGGCTATGAGGCGTTAGGCCGGGGTTGCCG 19 10 1 GTTAGGCCGGGGTTGCCGAGCGGTAAGGCGCACGCCTGG 19 31 1 TAAGGCGCACGCCTGGAGAGCGTGTGGGCGTTCGCCCGC 19 54 1 * ** *** * *** MAP Score: 0.86105