AlignACE 3.0 10/20/99 AlignACE2 -i AA/AA_operons008_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944235112 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ileS 38 isoleucyl-tRNA synthetase #1 leuA1 81 2-isopropylmalate synthase #2 aspC3 31 aminotransferase (AspC family) #3 nlpD1 256 lipoprotein #4 frdB2 39 fumarate reductase iron-sulfur subunit #5 rplT 54 ribosomal protein L20 #6 metG 293 methionyl-tRNA synthetase alpha subunit #7 nuoA2 300 NADH dehydrogenase I chain A #8 spoU 254 rRNA methylase SpoU #9 leuS' 300 leucyl-tRNA synthetase beta subunit #10 folC 29 folylpolyglutamate synthetase #11 ssf 300 Na(+):solute symporter (Ssf family) #12 aq_2113 291 putative protein Motif 1 AGGAATAATAAAATAGGAAAAGTTTTAACGAT 1 56 0 CCTTCCCGACGGAAGGGTTGAAATACTCGTAG 3 135 1 ACTCGTAGAGGGAGACGAAGAACTTATAGGAC 3 159 1 ATACTTATGAAGAACGGAAGGGTTTACCTTCT 6 80 0 TGGGACTGAAGGAGGGGAAAAGGGCAAAAATA 6 109 0 TCTCGGATACGAAAACGAAGAAAATCCTGTAA 6 159 0 AAGGAGGTAGAAAATGGTAGAGGGCTTAAAAG 6 210 0 TATAAAGAAGGAATTGGAAAAACTTAATCAAA 7 144 1 CAAGGAGTACGAAGAGGTAAAAAGGCTTTTCT 8 54 0 CTCAAAAGAAGAAGTGGAAAAAGCTTACAAGG 8 81 0 GGACTTTATGGAAATAGAAGAACTCCTTGAAA 8 117 0 CAATTATGAGGGACTGGAAAAGGACTTTATGG 8 138 0 ACTCAGGGAAGTAAAGGAAAAAATCAAAAACC 8 174 0 AAATTAAATGAAACTGGTGGAGAAACTCAGGG 8 198 0 TAAAAAATACGGAGTGGAGGAGTAAGCCATGG 11 126 1 AGTAAGCCATGGAATGGTTGGGTTACGTAATA 11 146 1 CAGGGCGACCGAAGCGGAAGAGTTTTACGTAC 11 222 1 CCCGCCTTCTGGAACGGAATGGCAGTAGCCGC 11 267 1 GTACCGCTCCGGAAAGGTAAAGCTGGAACACC 12 25 1 CATACTTGAAGGACTGGAAGAGTATCTAGATG 12 58 1 ACAAAAGTGGGAATGCGTAGAGAGTATAATTC 12 94 1 *** ******* MAP Score: 28.1583 Motif 2 TTATAAGAAGTTTTTTAACCCTTAACAATCGTT 1 29 1 CCTCTACGAGTATTTCAACCCTTCCGTCGGGAA 3 137 0 CCCTCTACCATTTTCTACCTCCTTTCGTGAAAT 6 218 1 GACAAAAATTTATTTGATCTCCTTAAGAAGGAG 6 19 0 ATCTAGATACTCTTCCAGTCCTTCAAGTATGTG 12 56 0 TCTTCATAAGTATTTTTGCCCTTTTCCCCTCCT 6 99 1 CATAAAGTCCTTTTCCAGTCCCTCATAATTGAA 8 139 1 TTCCCCTTTGTTTTTTAGCCTTTCTTCACCATT 7 201 1 CTTGTAAGCTTTTTCCACTTCTTCTTTTGAGGC 8 82 1 AAAAACAATCCTTTTGAGCCCCTTCCCTTGTTT 12 145 0 CCTTTTTACCTCTTCGTACTCCTTGTAAGCTTT 8 61 1 TTGATTAAGTTTTTCCAATTCCTTCTTTATATC 7 142 0 CCATCCTTGATTTTCAATCTTTTTAGCTATGTT 9 124 1 TCCGAAAACTTCTTTAAACTTTTTCTCAAACTC 12 266 0 TTATTTCTACTTTATCAACCCTTGCCGCGGGAG 3 218 0 TCCTATAAGTTCTTCGTCTCCCTCTACGAGTAT 3 157 0 TAAGAAATTCTTTTCCTTCTTTTAAGCCCTCTA 6 192 1 ATTGAAAGGGTTTTTGATTTTTTCCTTTACTTC 8 166 1 ACAGAGCTGTTGTATTTTCCCCTTTGTTTTTTA 7 185 1 CTCATTATTTTGTTTTTGTCTTTATAGTAAGTC 7 44 1 * *** * ***** MAP Score: 21.5537 Motif 3 ATTATTTTACGAAATGGTTTAAATTTTCTT 0 14 0 TAATAAAATAGGAAAAGTTTTAACGATTGT 1 53 0 TTCTATATCTAGAATAGTTTTT 2 19 1 CCTTCCCGACGGAAGGGTTGAAATACTCGT 3 135 1 ACCTCCCGCGGCAAGGGTTGATAAAGTAGA 3 216 1 TATGAAGAACGGAAGGGTTTACCTTCTGAA 6 77 0 CCTCATAATTGAAAGGGTTTTTGATTTTTT 8 159 1 AGTAAGCCATGGAATGGTTGGGTTACGTAA 11 146 1 AATAGTCTTTGGAATAGTTGCCCTTTTTAT 11 174 1 CGACCGAAGCGGAAGAGTTTTACGTACCGG 11 227 1 TTGAAGGACTGGAAGAGTATCTAGATGAAA 12 63 1 AGGAGTTTGAGAAAAAGTTTAAAGAAGTTT 12 264 1 ********** MAP Score: 18.7454 Motif 4 CCCTCTACGAGTATTTCAACCCTTCCGTCGGGAA 3 137 0 CAGAGCTGTTGTATTTTCCCCTTTGTTTTTTAGC 7 186 1 TTTCCCCTTTGTTTTTTAGCCTTTCTTCACCATT 7 200 1 TTTATAAGAAGTTTTTTAACCCTTAACAATCGTT 1 28 1 TTCTTCATAAGTATTTTTGCCCTTTTCCCCTCCT 6 98 1 TTCCATCCTTGATTTTCAATCTTTTTAGCTATGT 9 122 1 AGTTTCCTAAGAATTTCAACGTTTCTCCAGAAAA 8 26 1 TGAATTACAGGATTTTCTTCGTTTTCGTATCCGA 6 155 1 AAAGGGTTTTTGATTTTTTCCTTTACTTCCCTGA 8 170 1 AATAAGAAATTCTTTTCCTTCTTTTAAGCCCTCT 6 190 1 ACTCATTATTTTGTTTTTGTCTTTATAGTAAGTC 7 43 1 TACCTTTATAAAATTTCCATCCTTGATTTTCAAT 9 108 1 CTCCAGAAAAGCCTTTTTACCTCTTCGTACTCCT 8 50 1 TTATTTATTTAGCTTTTGTTGTTTACTTTATATA 7 77 1 * **** ***** MAP Score: 16.6145 Motif 5 AAGGATTATTTTACGAAATGGTTTAAATTT 0 18 0 TTATAATCGGCTTTTATAAGAAGTTTTTTAACC 1 16 1 GGCTTCAGAGCCTACACGAAGAGAATAGCGGAA 3 73 1 TTGAGTATGTCCTTTATGAAGTGTCCTATAAGT 3 180 0 GCGATGCCTCCTTTTACGAGAGAGGTTATTTTA 5 31 0 CAGTGAGCCTCCTTCTTAAGGAGATCAAATAAA 6 11 1 TTGTATCTTTATTTCACGAAAGGAGGTAGAAAA 6 228 0 TTCTTAGGAAACTTTACGAGGTGGGCTAA 8 6 0 TCTTTTGAGGCTTTTTCAAGGAGTTCTTCTATT 8 104 1 AGACACCTAACCTTCACGAAACGAATGTTAATT 9 43 1 AGAATTCCCGCCTTCTGGAACGGAATGGCAGTA 11 261 1 CCAGCTTTACCTTTCCGGAGCGGTACTTAAACC 12 18 0 GTTATAAACTCCTTTACAAGACGGGAACCTCAG 12 198 1 AACCACGAATACTTCCTGAACTGAGGTTCCCGT 12 218 0 ***** **** * MAP Score: 10.7766 Motif 6 AAGAAAGAAAATTTAAACCATTTCGTAAAA 0 5 1 AAACTTAATCAAAAACAATAAAACAGAGCTGTTGT 7 163 1 AAGACTTACTATAAAGACAAAAACAAAATAATGAG 7 44 0 TAAATGGTGAAGAAAGGCTAAAAAACAAAGGGGAA 7 201 0 GGAGTTTGAGAAAAAGTTTAAAGAAGTTTTCGGAA 12 265 1 AAAGTAAACAACAAAAGCTAAATAAATAAGACTTA 7 71 0 AATCTGGATAATAAATTCTAAAGCTATAAAATTTT 4 10 1 ACATAGCTAAAAAGATTGAAAATCAAGGATGGAAA 9 121 0 GAAGTAAAGGAAAAAATCAAAAACCCTTTCAATTA 8 164 0 GCAAGGGTTGATAAAGTAGAAATAATAAAGGAGCA 3 226 1 AGAGGGCTTAAAAGAAGGAAAAGAATTTCTTATTC 6 189 0 TTAACCCTTAACAATCGTTAAAACTTTTCCTATTT 1 43 1 AAATAAAGATACAATCTCAAAATCTTTGTGTCAAG 6 247 1 TTTTCTTGACACAATTTTAAAACACTGGTATATCT 7 247 1 * *** **** ** MAP Score: 6.40044 Motif 7 TAATTAACATGAAGTTGAGGATTTTCGTAGA 3 23 1 GATTTTCGTAGAAGGTCTGGTGCAGGGAGTG 3 42 1 GAGAATAGCGGAAAGTTACGGATTAAACGGT 3 93 1 CGGAAGGGTTGAAATACTCGTAGAGGGAGAC 3 144 1 AATACTCGTAGAGGGAGACGAAGAACTTATA 3 156 1 CCATGGGACTGAAGGAGGGGAAAAGGGCAAA 6 113 0 CTGAGCTTTTGAATTACAGGATTTTCTTCGT 6 146 1 TTTCAATTATGAGGGACTGGAAAAGGACTTT 8 142 0 GAAACTCAGGGAAGTAAAGGAAAAAATCAAA 8 178 0 TTCGTTTCGTGAAGGTTAGGTGTCTAATAAG 9 37 0 CCGCTAACCCGAGGTTCTGCAAACTTGAGTA 9 77 1 CTTTGTTGTGGAGATTTTCGTTTACGCTTGG 11 78 1 CCACATACTTGAAGGACTGGAAGAGTATCTA 12 55 1 CTCAGTTCAGGAAGTATTCGTGGTTTGCAAA 12 226 1 AAAGTTTAAAGAAGTTTTCGGAAA 12 277 1 ****** **** MAP Score: 4.76341 Motif 8 GAAAGAAAATTTAAACCATTTCGTAAAATAATCC 0 12 1 TTGTTAAGGGTTAAAAAACTTCTTATAAAAGCCG 1 23 0 TTAACAATCGTTAAAACTTTTCCTATTTTATTAT 1 50 1 CTACGAGTATTTCAACCCTTCCGTCGGGAAGGTT 3 133 0 GTCCTATAAGTTCTTCGTCTCCCTCTACGAGTAT 3 157 0 CTTTCAGAAGGTAAACCCTTCCGTTCTTCATAAG 6 75 1 CATAAGTATTTTTGCCCTTTTCCCCTCCTTCAGT 6 103 1 TTACAGGATTTTCTTCGTTTTCGTATCCGAGAAT 6 159 1 TTGATTAAGTTTTTCCAATTCCTTCTTTATATCG 7 141 0 TTAGCCCACCTCGTAAAGTTTCCT 8 0 1 AGAAAAGCCTTTTTACCTCTTCGTACTCCTTGTA 8 54 1 CCTTGTAAGCTTTTTCCACTTCTTCTTTTGAGGC 8 81 1 ACAATCCTTTTGAGCCCCTTCCCTTGTTTTGTCT 12 140 0 TTTAAACTTTTTCTCAAACTCCTCGTAGTCTTTG 12 253 0 ** ** ****** MAP Score: 2.37169 Motif 9 CTACGAGTATTTCAACCCTTCCGTCGGGAAGGTT 3 133 0 TCAGTGAGCCTCCTTCTTAAGGAGATCA 6 4 1 TATTCTTGTATTGTCAACTTTCAGAAGGTAAACC 6 58 1 TTTTGCCCTTTTCCCCTCCTTCAGTCCCATGGAC 6 112 1 CCCTCTACCATTTTCTACCTCCTTTCGTGAAATA 6 218 1 TTGATTAAGTTTTTCCAATTCCTTCTTTATATCG 7 141 0 AGCTGTTGTATTTTCCCCTTTGTTTTTTAGCCTT 7 189 1 GAAAAGCCTTTTTACCTCTTCGTACTCCTTGTAA 8 55 1 CCTGAGTTTCTCCACCAGTTTCATTTAATTTATT 8 199 1 CTTTATAAAATTTCCATCCTTGATTTTCAATCTT 9 111 1 ACTGGATAAGTGCACAGCTTTCGGTAATTACCTT 11 47 1 GCTTGGATTATGAACAACCTTGATAAAAAATACG 11 103 1 TACGTAAAACTCTTCCGCTTCGGTCGCCCTGTTG 11 219 0 CGGTATGAGAATTCCCGCCTTCTGGAACGGAATG 11 254 1 ACAATCCTTTTGAGCCCCTTCCCTTGTTTTGTCT 12 140 0 ** ** ***** * MAP Score: 2.10549 Motif 10 CTGCACCAGACCTTCTACGAAAATCCTCAAC 3 36 0 TTCTTCGTCTCCCTCTACGAGTATTTCAACC 3 150 0 TTGAGTATGTCCTTTATGAAGTGTCCTATAA 3 182 0 TATTATTTCTACTTTATCAACCCTTGCCGCG 3 222 0 GCGATGCCTCCTTTTACGAGAGAGGTTATT 5 34 0 TGTATTGTCAACTTTCAGAAGGTAAACCCTT 6 64 1 TTTTCTACCTCCTTTCGTGAAATAAAGATAC 6 228 1 AAAAGTGCCCTCCGCAAAAACTATGTAA 7 282 0 GGTAAAAAGGCTTTTCTGGAGAAACGTTGAA 8 40 0 CTGGAAAAGGACTTTATGGAAATAGAAGAAC 8 126 0 TTTTTCCTTTACTTCCCTGAGTTTCTCCACC 8 184 1 TAGACACCTAACCTTCACGAAACGAATGTTA 9 42 1 GAGAATTCCCGCCTTCTGGAACGGAATGGCA 11 260 1 TCCAGCTTTACCTTTCCGGAGCGGTACTTAA 12 21 0 GTCTCACTATCCTTCCCGGAATTATACTCTC 12 113 0 AACCACGAATACTTCCTGAACTGAGGTTCCC 12 220 0 GTTTAAAGAAGTTTTCGGAAA 12 280 1 ****** **** MAP Score: 1.10542 Motif 11 GACATACTCAAAGGACCTCCCGCGGCAAGGGTTGATAAA 3 202 1 TTTATGTTAAAATAACCTCTCTCGTAAAAGGAGGCATCG 5 24 1 TCAGTGAGCCTCCTTCTTAAGGAGATCAAATA 6 3 1 CTATTCTTGTATTGTCAACTTTCAGAAGGTAAACCCTTC 6 57 1 AACGAATGTTAATTTCCGCTAACCCGAGGTTCTGCAAAC 9 62 1 ATCACTTATTAGGACCCACCTACCCTATTCAGTTGCCAA 9 191 1 CTATATTCGGATTCCCCGCTCACTACTGGATAAGTGCAC 11 23 1 TACTGGATAAGTGCACAGCTTTCGGTAATTACCTTTGTT 11 46 1 CCGGTATGAGAATTCCCGCCTTCTGGAACGGAATGGCAG 11 253 1 ACGGAATGGCAGTAGCCGCTGACTGGATGA 11 280 1 GGGGAGGTTTAAGTACCGCTCCGGAAAGGTAAAGCTGGA 12 13 1 * * ***** * * * MAP Score: 0.303629