AlignACE 3.0 10/20/99 AlignACE2 -i AA/AA_operons011_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944235278 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 nsd 277 nucleotide sugar dehydrogenase #1 rpmB 44 ribosomal protein L28 #2 kdsA 264 3-deoxy-d-manno-octulosonic acid 8-phosphate synthase #3 bioA 197 DAPA aminotransferase #4 thiE2 37 thiamine phosphate synthase #5 recN 163 recombination protein RecN #6 mrcA 34 penicillin binding protein 1A #7 gsa 24 glutamate-1-semialdehyde aminotransferase #8 aroE 266 shikimate 5-dehydrogenase #9 aq_972_secD 25 aq_972: hypothetical protein, secD: protein export membrane protein SecD #10 cphA2 42 beta lactamase precursor #11 aq_1137 29 putative protein #12 aroA 37 5-enolpyruvylshikimate-3-phosphate synthetase #13 aq_1873 300 putative protein #14 rplM 45 ribosomal protein L13 #15 aq_2066 39 hypothetical protein #16 argB 73 acetylglutamate kinase Motif 1 GTTATCCTTTCCAGAAATGGAA 2 2 1 ACATTCATAATTTCCTTTTCAACACCTGAA 5 44 0 TTAATCATTCTTTCCTTTTCCCTCAGGTTC 10 12 1 CTGAAGAACTTAGCCTTTTCTATTAACTCA 16 11 0 TGTACACCCTTATCCTTCCCAAAATATCCG 3 67 1 AATCCCATAGTAACCTTTCCCGTGAGGTTT 2 113 1 AAGACACCGTTTACCTTTCCTTTGAAGGAG 8 116 1 TTACGGAACAAATCCTTTCCAGCTTCTCGT 3 112 1 CCGTGAGGTTTTTCCTCCTCAGCGTTCTTG 2 132 1 CTTAAGACGATTTCCTTTTTCATTATTATT 0 18 0 CTTAATGGGGTAGCCTTTTTTAAACCTTTC 0 88 0 TTCTCCACACTTTCCTCTTTGAGTATTTTT 13 220 0 GAAAACCTTTCCGTGAAATTCC 16 61 0 ATTCTTTATATATCCTTCTTCTACTTTACG 13 77 1 GTAAAGAGAATAGCCCCTTCAGCCTTGTAA 2 181 0 CGGGCGGAGTAATCCTTACCAGGAATTCTA 0 164 0 TCAAAAGAATGTTCCTTTTCGGCTTTTCTG 13 136 0 ATAAGGAAGTTTGCCTCATCCCTGTACACC 3 45 1 TTTTAAGCGGTTTCCTTTACAACGAAAGCA 2 57 1 CTATGGGATTTTTCCCTTTTTTGGCTCTTC 2 93 0 GCATTCTTGTATTCCTCATCTATTTTCTCA 0 51 0 TCAAGCCCCTCCTATTTATTTT 13 288 0 CTGATTACTTTAACCTCCCTCAGTTCGTTC 13 109 0 ACTACTAATTTAACCTTACTCTAAAAAAGA 2 243 0 CCGCTGAAGATATCCTCTCAGGGAAAGCTT 0 191 1 ********** MAP Score: 25.9566 Motif 2 GAAGAAGGTTGAAGAAATTGAAAAAGTGCTCGAAAA 8 24 1 ACTCAAAGAGGAAAGTGTGGAGAAAGCTAAATCCAT 13 226 1 AGAGCTGGAAGAAACGCCCGAGAAGGTGGGAAATCG 2 210 0 AATTACTCGAAGTCGGAGAAAGAGTAAAATCTTT 12 8 1 GGAAAAGTTAGAACCTGAGGGAAAAGGAAAGAATGA 10 16 0 TTTTTCTCTGAAAAGTTCGGAAAAAGCTTTCCCTGA 0 208 0 TGCAAGGATTGAAAGGTTTAAAAAAGGCTACCCCAT 0 78 1 TTACATACGGGAATTTCACGGAAAGGTTTTC 16 52 1 ACTTTACGGTGAACGAACTGAGGGAGGTTAAAGTAA 13 99 1 AGCATATACAGAAGAGCCAAAAAAGGGAAAAATCCC 2 83 1 TGAGGAGGAAAAACCTCACGGGAAAGGTTACTATGG 2 117 0 ATGAGTTAATAGAAAAGGCTAAGTTCTT 16 2 1 CGTTGTAAAGGAAACCGCTTAAAAAGCCTATAATAC 2 45 0 TTCAACACCTGAAAAATTCGGGAAATAATTTAAAGT 5 21 0 AACTTGAATATCTTAAAGGAGAGTTTATCAT 15 18 0 ATTAAGTTTAGAAGAACAAGAACGAGGGAAAAATTT 0 112 1 GAGGGAGGTTAAAGTAATCAGAAAAGCCGAAAAGGA 13 118 1 CAGCCTTGTAAAAGTAAACGATAAAGAAAACAAGAA 2 156 0 CATCCTTGATGAAACCATTAAAAAGTTAGAAAATAA 13 259 1 AAGCCTTGAGAAAATAGATGAGGAATACAAGAATGC 0 45 1 ATTTTTAGAATAATAATGAAAAAGGAAATCGTCT 0 8 1 TATCCTTCCCAAAATATCCGAGAGGTAGTGTTCTAT 3 77 1 AAAAGTTAGAAAATAAATAGGAGGGGCTTGA 13 279 1 ATTACTTACTAAAAACATAAAAAAATCGTCAAGG 13 8 0 CGTTCACCGTAAAGTAGAAGAAGGATATATAAAGAA 13 78 0 GGGAAACGTCAAGTGGGTTAAGAAAGTAGAAATAAC 8 207 1 TAAAGAAAACAAGAACGCTGAGGAGGAAAAACCTCA 2 135 0 CTGTATCAACGAGGTTTTTGAGGGATATGTCTACAA 8 164 0 *** ******* MAP Score: 22.0874 Motif 3 AGAAACGCCCGAGAAGGTGGGAAATCGTAAAGAGAAT 2 200 0 CAGTAATTAAGGGAAACGTCAAGTGGGTTAAGAAAGT 8 197 1 TAGAACCTGAGGGAAAAGGAAAGAATGATTAATT 10 7 0 GGAAAAGTTAGAACCTGAGGGAAAAGG 10 25 0 GTTTTTCTCTGAAAAGTTCGGAAAAAGCTTTCCCTGA 0 208 0 GCTTTAAACTCGGAAGAGGTGAATGGG 14 28 1 AATGATGCACGAGAAGCTGGAAAGGATTTGTTCCGTA 3 113 0 GAACTTTTCAGAGAAAAACAAAAAAATCCTTAATATA 0 226 1 CTCGAAGTCGGAGAAAGAGTAAAATCTTTTCT 12 15 1 TTAAAGTAATCAGAAAAGCCGAAAAGGAACATTCTTT 13 126 1 AAAGCATATACAGAAGAGCCAAAAAAGGGAAAAATCC 2 81 1 AAGAAGGTTGAAGAAATTGAAAAAGTGCTCGAAAAAA 8 25 1 TACTCAAAGAGGAAAGTGTGGAGAAAGCTAAATCCAT 13 225 1 CTCTTTTTTAGAGTAAGGTTAAATTAGTAGTT 2 242 1 CAAGAACGAGGGAAAAATTTAAGAGCGATACTTTAGT 0 128 1 GGTGTTGAAAAGGAAATTATGAATGTTTAAATTAATA 5 48 1 TTTGACGCAAAGGAAGTAATAAACTCTCTCAAAGCCC 13 161 1 GTAAACGATAAAGAAAACAAGAACGCTGAGGAGGAAA 2 142 0 ATTTTTAGAATAATAATGAAAAAGGAAATCGTCT 0 7 1 ATGCAAGGATTGAAAGGTTTAAAAAAGGCTACCCCAT 0 77 1 GATATATAAAGAATAAATACAAAGGCTAAAAGTCCGC 13 54 0 ATGAGTTAATAGAAAAGGCTAAGTTCTTCAGGAAGCC 16 10 1 ****** *** * MAP Score: 15.0562 Motif 4 ATTTTTAGAATAATAATGAAAAA 0 3 1 CCCCATTAAGTTTAGAAGAACAAGAACGAG 0 108 1 AGAGCGATACTTTAGTAGAATTCCTGGTAA 0 149 1 AGGTTTTAATTTTAACAGAAAGTATATTAA 0 255 0 GTTAAAAGATTTTAATATAA 1 0 1 GTTAAAAGATTTTAATATAATAAAGTTCTC 1 10 1 CCAGCTCTTTTTTAGAGTAAGGTTAAATTA 2 238 1 CGGGAAATAATTTAAAGTATTAAATTATT 5 9 0 ATTATGAATGTTTAAATTAATATACTCAGC 5 63 1 TATTTAGAATATATTAAATACT 6 2 1 TAAGTTAAATTTAAAATAACAAGT 7 9 1 AGCAACCTCCTTCAAAGGAAAGGTAAACGG 8 122 0 AAATTAATGATTTAATATATAAAACTCAC 11 9 0 ACTGAGGGAGGTTAAAGTAATCAGAAAAGC 13 115 1 CTTCCTTTGCGTCAAAAGAATGTTCCTTTT 13 147 0 ATGAGTTAATAGAAAAGGCTAAGT 16 4 1 ********** MAP Score: 8.98162 Motif 5 TTAGAATAATAATGAAAAAGGAAATCGTCTT 0 14 1 GAACAAGAACGAGGGAAAAATTTAAGAGCGA 0 125 1 GATATCCTCTCAGGGAAAGCTTTTTCCGAAC 0 199 1 AGAGCCAAAAAAGGGAAAAATCCCATAGTAA 2 95 1 GAAAAACCTCACGGGAAAGGTTACTATGGGA 2 115 0 TACTGTAATAAACGTGAACGTGT 3 2 0 GTAGAACCCCAAGGTATAAGGAAGTTTGCCT 3 30 1 ATATTTTGGGAAGGATAAGGGTGTACAGGGA 3 63 0 CTTCAAAGGAAAGGTAAACGGTGTCTTCCTT 8 112 0 CGAGGTTTTTGAGGGATATGTCTACAACCGG 8 160 0 TACAGTAATTAAGGGAAACGTCAAGTGGGTT 8 195 1 GTTAGAACCTGAGGGAAAAGGAAAGAATGAT 10 15 0 CGAACTGAGGGAGGTTAAAGTAATCAGAAAA 13 112 1 AAAATACTCAAAGAGGAAAGTGTGGAGAAAG 13 221 1 AAACTCGGAAGAGGTGAATGGG 14 33 1 ACGGGAATTTCACGGAAAGGTTTTC 16 58 1 ******** ** MAP Score: 8.31978 Motif 6 AAAGAATGTTCCTTTTCGGCTTTTCTGATTACTTTAACCT 13 123 0 AGTAACCTTTCCCGTGAGGTTTTTCCTCCTCAGCGTTCTT 2 121 1 ACAAAAAAATCCTTAATATACTTTCTGTTAAAATTAAAAC 0 243 1 TTTTGGCTCTTCTGTATATGCTTTCGTTGTAAAGGAAACC 2 65 0 TATTTTCTAACTTTTTAATGGTTTCATCAAGGATGGATTT 13 254 0 GATTTCCCACCTTCTCGGGCGTTTCTTCCAGCTCTTTTTT 2 211 1 GGACTTTTAGCCTTTGTATTTATTCTTTATATATCCTTCT 13 56 1 TGGATTTAGCTTTCTCCACACTTTCCTCTTTGAGTATTTT 13 221 0 ATAATTTAATACTTTAAATTATTTCCCGAATTTTTCAGGT 5 11 1 ACTTTCTTAACCCACTTGACGTTTCCCTTAATTACTGTAT 8 194 0 CGGAACAAATCCTTTCCAGCTTCTCGTGCATCATTACTAT 3 115 1 TGGCTACCTCCAGAAATTTTTCAGTGATTTAAATATA 4 10 0 GGGAAAGGTTACTATGGGATTTTTCCCTTTTTTGGCTCTT 2 94 0 CCCATTCACCTCTTCCGAGTTTAAAGCAAG 14 25 0 GCGGAGTAATCCTTACCAGGAATTCTACTAAAGTATCGCT 0 151 0 TGTCGAATTTCTGCTGAGTTATTTCTACTTTCTTAACCCA 8 220 0 TTTTCTCAAGGCTTAAGACGATTTCCTTTTTCATTATTAT 0 19 0 TGATAAACTCTCCTTTAAGATATTCAAGTT 15 19 1 TCTGAAAAGTTCGGAAAAAGCTTTCCCTGAGAGGATATCT 0 198 0 GCCTTATTTTTTCGAGCACTTTTTCAATTTCTTCAACCTT 8 28 0 *** * * **** * MAP Score: 2.77721 Motif 7 CTTAAGACGATTTCCTTTTTCATTATTATTC 0 17 0 TCTTAAATTTTTCCCTCGTTCTTGTTCTTCT 0 121 0 TCTTCTACCTCCGAGAGAACTT 1 32 0 CCGTGAGGTTTTTCCTCCTCAGCGTTCTTGT 2 132 1 TCTTTACGATTTCCCACCTTCTCGGGCGTTT 2 204 1 ATAAGGAAGTTTGCCTCATCCCTGTACACCC 3 45 1 GAACAAATCCTTTCCAGCTTCTCGTGCATCA 3 117 1 GTGGGTTCGAATCCCACCGCCGGCTCTCAAA 5 138 1 ACAGCTGGAGCAACCTCCTTCAAAGGAAAGG 8 129 0 TGCTGAGTTATTTCTACTTTCTTAACCCACT 8 218 0 TTAATCATTCTTTCCTTTTCCCTCAGGTTCT 10 12 1 AGAAAAGATTTTACTCTTTCTCCGACTTCG 12 17 0 TTAGTAAGTAATCCTACCTTCGGCGGACTTT 13 32 1 ATTCTTTATATATCCTTCTTCTACTTTACGG 13 77 1 CTGATTACTTTAACCTCCCTCAGTTCGTTCA 13 108 0 ** ******** MAP Score: 2.7092 Motif 8 TTGCATTCTTGTATTCCTCATCTATTTTCTCAAGGC 0 47 0 GCTCTTAAATTTTTCCCTCGTTCTTGTTCTTCTAAA 0 118 0 TCCTGGTAAGGATTACTCCGCCCGCTGAAGATATCC 0 170 1 CTTTTTAAGCGGTTTCCTTTACAACGAAAGCATATA 2 55 1 GTTACTATGGGATTTTTCCCTTTTTTGGCTCTTCTG 2 91 0 AAAATCCCATAGTAACCTTTCCCGTGAGGTTTTTCC 2 111 1 TCCCGTGAGGTTTTTCCTCCTCAGCGTTCTTGTTTT 2 130 1 CAGCGTTCTTGTTTTCTTTATCGTTTACTTTTACAA 2 151 1 GTATAAGGAAGTTTGCCTCATCCCTGTACACCCTTA 3 43 1 GGAAGACACCGTTTACCTTTCCTTTGAAGGAGGTTG 8 114 1 CTTTGAAGGAGGTTGCTCCAGCTGTCCGGTTGTAGA 8 135 1 CCCACTTGACGTTTCCCTTAATTACTGTATCAACGA 8 188 0 AATTAATCATTCTTTCCTTTTCCCTCAGGTTCTAAC 10 10 1 AAGATTTTACTCTTTCTCCGACTTCGAGTAATT 12 7 0 CGGCTTTTCTGATTACTTTAACCTCCCTCAGTTCGT 13 111 0 TGAGAGAGTTTATTACTTCCTTTGCGTCAAAAGAAT 13 156 0 * ** **** * ** MAP Score: 2.61723 Motif 9 GAATAATAATGAAAAAGGAAATCGTCTTAAG 0 17 1 TGAGAAAATAGATGAGGAATACAAGAATGCA 0 51 1 ATGCAAGGATTGAAAGGTTTAAAAAAGGCTA 0 77 1 TATCCTCTCAGGGAAAGCTTTTTCCGAACTT 0 201 1 ACTTTTCAGAGAAAAACAAAAAAATCCTTAA 0 228 1 ATGCTTTCGTTGTAAAGGAAACCGCTTAAAA 2 57 0 AAAACCTCACGGGAAAGGTTACTATGGGATT 2 113 0 AAAAGTAAACGATAAAGAAAACAAGAACGCT 2 152 0 CTTCAGCCTTGTAAAAGTAAACGATAAAGAA 2 164 0 TTTCAGGTGTTGAAAAGGAAATTATGAATGT 5 43 1 CTCCTTCAAAGGAAAGGTAAACGGTGTCTTC 8 115 0 AGAACCTGAGGGAAAAGGAAAGAATGATTAA 10 12 0 GGAAAAGTTAGAACCTGAGGG 10 31 0 CCGTAAAGTAGAAGAAGGATATATAAAGAAT 13 77 0 GGAAAGTGTGGAGAAAGCTAAATCCATCCTT 13 235 1 TTTAAACTCGGAAGAGGTGAATGGG 14 30 1 TGAGTTAATAGAAAAGGCTAAGTTCTTCAGG 16 11 1 ******* *** MAP Score: 2.05615 Motif 10 ATGCAAGGATTGAAAGGTTTAAAAAAGGCTAC 0 77 1 AACTTTTCAGAGAAAAACAAAAAAATCCTTAA 0 227 1 AGAAGAGCCAAAAAAGGGAAAAATCCCATAGT 2 92 1 CGTTTACTTTTACAAGGCTGAAGGGGCTATTC 2 172 1 TCTTTTTTAGAGTAAGGTTAAATTAGTAGTT 2 243 1 AGTATGGCTGAAATGAAGAAGG 8 0 1 GGCTGAAATGAAGAAGGTTGAAGAAATTGAAA 8 15 1 CCTCCTTCAAAGGAAAGGTAAACGGTGTCTTC 8 115 0 AAGTGGGTTAAGAAAGTAGAAATAACTCAGCA 8 217 1 TCGAAGTCGGAGAAAGAGTAAAATCTTTTCT 12 16 1 AAGAATAAATACAAAGGCTAAAAGTCCGCCGA 13 51 0 CGTAAAGTAGAAGAAGGATATATAAAGAATAA 13 75 0 GAACGAACTGAGGGAGGTTAAAGTAATCAGAA 13 109 1 CCGAGTTTAAAGCAAGATTGTAATTATAACA 14 9 0 ** **** **** MAP Score: 1.90776 Motif 11 TTTCTCAAGGCTTAAGACGATTTCCTTTTTCATTAT 0 22 0 TAAAGTATCGCTCTTAAATTTTTCCCTCGTTCTTGT 0 127 0 AAGAGCGATACTTTAGTAGAATTCCTGGTAAGGATT 0 148 1 AGGGAAAGCTTTTTCCGAACTTTTCAGAGAAAAACA 0 210 1 ATTATAGGCTTTTTAAGCGGTTTCCTTTACAACGAA 2 47 1 GGAAAGGTTACTATGGGATTTTTCCCTTTTTTGGCT 2 97 0 AGTAACCTTTCCCGTGAGGTTTTTCCTCCTCAGCGT 2 121 1 TTTCCAGCTTCTCGTGCATCATTACTATTTTTACAA 3 127 1 TGGCTACCTCCAGAAATTTTTCAGTGATTTAAA 4 14 0 TAATTTAATACTTTAAATTATTTCCCGAATTTTTCA 5 12 1 GCCTTATTTTTTCGAGCACTTTTTCAATTTCTTCAA 8 32 0 CGAGCTTGAGCTCGCCTTGATGTTCCTTAAGAGCAG 8 68 0 CACTTTCCTCTTTGAGTATTTTTTCAGTGTGCAATA 13 207 0 GGATTTAGCTTTCTCCACACTTTCCTCTTTGAGTAT 13 224 0 TCAAGCCCCTCCTATTTATTTTCTAACTTTTTAA 13 276 0 GAAAACCTTTCCGTGAAATTCCCGTATGTAAGG 16 50 0 *** * ****** MAP Score: 0.639904