AlignACE 3.0 10/20/99 AlignACE2 -i AA/AA_operons019_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944235744 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 rpmH 43 ribosomal protein L34 #1 atpB 49 ATP synthase F0 subunit a #2 dnaA 90 chromosome replication initiator protein DnaA #3 aq_323 91 putative protein #4 gyrA 117 DNA gyrase A subunit #5 aq_1029 268 putative protein #6 selD 153 selenophosphate synthase #7 selA 27 L-seryl-tRNA(ser) selenium transferase #8 recR 258 recombination protein RecR #9 himA 31 DNA binding protein HU #10 rpsA 66 ribosomal protein S01 #11 rpoD 38 RNA polymerase sigma factor RpoD #12 dnaG 66 DNA primase #13 icd 113 isocitrate dehydrogenase #14 aq_1515 25 putative protein #15 aq_1516 58 putative protein #16 pycA 23 pyruvate carboxylase c-terminal domain #17 aq_1525 40 putative protein #18 aq_1526 50 hypothetical protein #19 aq_1527 70 hypothetical protein #20 dnaX 178 DNA polymerase III gamma subunit #21 aq_1873 300 putative protein #22 rplM 45 ribosomal protein L13 #23 dnaN 24 DNA polymerase III beta chain #24 aq_2060 284 hypothetical protein #25 gltD 39 glutamate synthase small subunit gltD Motif 1 AGCCAATTGCAAAAGAGGTAAGGGAA 1 33 1 AGTGAAAGGGAAAAGAGGAAAGAACTTAAA 2 9 0 GAGGTAAACTCAAAAAAGTCAAGGAGAGTGA 2 35 0 ACGGGAAAGTGAAGGAGGTAAACTCAAAAAA 2 49 0 TGAGATTTATCAAGGAAGAAAAATAACGATT 4 49 1 GGGACAGATTGAAGGCGGAAAGCGTTTTCCT 5 104 1 ATTCTGAAAAGGAGGAGGAAAGAGA 5 253 1 AGGAGACTATGGAGGAGGTAAAAAGGGAACT 8 46 1 TAGAGTTTAAGGGAGAAGAAAAGGACTGCGA 8 151 1 ATCTCTTTGAAAAAGAAGTGAGAATGTTTTA 10 16 1 AATTCTGTCTGGAGGAAGTTA 10 55 1 TATTCCCTAACAAGGAGGTCATAA 14 11 1 AAAGAGTCCGAAAGAAAGACACGAGCACCTC 15 11 0 AAACTTTAAAGGAGGTAATATAG 16 7 1 AAAAAGAAGGGAAAAAGGAAAGC 17 2 0 GAGAGCCTTTGAAGGAGGTCTGGT 19 56 1 CCGTAAAGTAGAAGAAGGATATATAAAGAAT 21 77 0 TGAACGAACTGAGGGAGGTTAAAGTAATCAG 21 108 1 CTTTTGACGCAAAGGAAGTAATAAACTCTCT 21 159 1 AAAAAATACTCAAAGAGGAAAGTGTGGAGAA 21 219 1 CTTTAAACTCGGAAGAGGTGAATGGG 22 29 1 ********* * MAP Score: 31.5663 Motif 2 TCCCCTTCCCTTTCCCTTATAATA 9 2 1 ATTTAGCTTTCTCCACACTTTCCTCTTTGAGT 21 226 0 TCTCTTTCCTCCTCCTTTTCAGAATATACC 5 248 0 GGGCTTACCCTTGCTCCCTTTCGGGCCTGGGG 20 107 0 ATAAAGAATGTTCCACTCTTTTGTTTTTAATT 6 43 0 CCGCCGGGGGTGCCACTCTTTTTTTATTTATA 24 149 1 TGGCCTAGGACGCCGGCCTTTCACGCCGGAAA 24 103 1 CGACGGGGGCTACCACTCTTCCGTTTTTCTTA 24 64 0 TGAGTTTACCTCCTTCACTTTCCCGTGGATAA 2 54 1 AAAACATTCTCACTTCTTTTTCAAAGAGATTT 10 14 0 TTTCCTTTTTCCCTTCTTTTTCTTTTAAAATT 17 12 1 GTTGGGAGAGCGCCGCCCTTACAAGGCGGAGG 24 199 1 TTCCCTTACCTCTTTTGCAATTGGCTCA 1 31 0 CTATTTCCACTCCGTCCTTTTCAAGGATATCC 8 89 0 AAAGTATAAATTCCCCACTCTCCTCACCCTTA 5 15 1 GCCCTTCTCTCTCCTTTAAATTT 0 1 1 TTTAAGTTCTTTCCTCTTTTCCCTTTCACTCT 2 10 1 TTCAATGAGACTCTTCACTTTTGTTAAAAAGT 5 202 0 GAGAGTTTATTACTTCCTTTGCGTCAAAAGAA 21 157 0 ATTTCAAATTTTCCCCATTTGCTCATTTAGAA 6 11 1 AGGATGCTTTTTGCACTCTTTTTTATTTTCAC 5 64 0 GGAGGTGCTCGTGTCTTTCTTTCGGACTC 15 7 1 TTTCATCCCTCAGTTCCCTTTTTACCTCCTCC 8 56 0 CCAACTGAGCTACCCGCCTTGTTTATAAATAA 24 172 0 TGTCTTTCTTTCGGACTCTTTTTGTTTTATAA 15 21 1 CCTTTCACTCTCCTTGACTTTTTTGAGTTTAC 2 31 1 ATCCTACCTTCGGCGGACTTTTAGCCTTTGTA 21 42 1 * ** ******* MAP Score: 24.8985 Motif 3 GCTTTCTCCACACTTTCCTCTTTGAGTATTTTT 21 220 0 TCTCTTTCCTCCTCCTTTTCAGAA 5 254 0 TACAGGAAAACGCTTTCCGCCTTCAATCTGTCC 5 105 0 AAAGAATGTTCCTTTTCGGCTTTTCTGATTACT 21 130 0 AAGTTCTTTCCTCTTTTCCCTTTCACTCTCCTT 2 13 1 TTCTCGCAGTCCTTTTCTTCTCCCTTAAACTCT 8 152 0 TCCCTCAGTTCCCTTTTTACCTCCTCCATAGTC 8 50 0 TTTATATATCCTTCTTCTACTTTACGGTGAACG 21 81 1 TCCCCTTCCCTTTCCCTTATAATA 9 1 1 TTGAGTTTACCTCCTTCACTTTCCCGTGGATAA 2 53 1 GGCGGGCTTACCCTTGCTCCCTTTCGGGCCTGG 20 109 0 TCGTTTATAACCTTTGCAACTTCGCGGA 18 5 0 GCTTTCCTTTTTCCCTTCTTTTTCTTTT 17 5 1 TCAAGGATATCCTTTTCATCCCTCAGTTCCCTT 8 68 0 TTCCCTTACCTCTTTTGCAATTGGC 1 34 0 TTCTTTCGGACTCTTTTTGTTTTATAAGCTCGG 15 26 1 GAATGTTCCACTCTTTTGTTTTTAATTTTCTAA 6 37 0 GGGGCTACCACTCTTCCGTTTTTCTTATCACCC 24 58 0 CCCATTCACCTCTTCCGAGTTTA 22 32 0 TTTTTGCACTCTTTTTTATTTTCACAACTGAGA 5 56 0 GCCCTTCTCTCTCCTTTAAATTTT 0 1 1 CCGTTGAAGACTATTTCCACTCCGTCCTTTTCA 8 98 0 * ***** **** MAP Score: 23.8013 Motif 4 AAAATTTAAAGGAGAGAGAAGGGC 0 1 0 GAGTGAAAGGGAAAAGAGGAAAGAACTTAAA 2 8 0 AAAAAGTCAAGGAGAGTGAAAGGGAAAAGAGGA 2 21 0 ATTATCCACGGGAAAGTGAAGGAGGTAAACTCA 2 54 0 TTAAGGGTGAGGAGAGTGGGGAATTTATACTTT 5 15 0 TACGTATTGGGGACAGATTGAAGGCGGAAAGCG 5 95 1 GGTATATTCTGAAAAGGAGGAGGAAAGAGA 5 248 1 AGAACTTTCAGGAGACTATGGAGGAGGTAAAAA 8 37 1 GGATATCCTTGAAAAGGACGGAGTGGAAATAGT 8 89 1 GAGAAGAAAAGGACTGCGAGAAGTTAAAGCCCG 8 163 1 ACATAGCGAGGGACAAGGTAAAGGAAGCCTTCA 8 226 1 GTATTATAAGGGAAAGGGAAGGGGA 9 2 0 GAAAAAGAAGGGAAAAAGGAAAGC 17 1 0 CCCTGCGGCGGGACAGGGTGAACTCCCCCAGGC 20 82 1 TACGGTGAACGAACTGAGGGAGGTTAAAGTAAT 21 103 1 TACTCAAAGAGGAAAGTGTGGAGAAAGCTAAAT 21 225 1 *** ** * **** MAP Score: 20.6141 Motif 5 TTTAAGTTCTTTCCTCTTTTCCCTTTCACTC 2 6 1 TCTTTTCCCTTTCACTCTCCTTGACTTTTTTGAGT 2 24 1 TTTGAGTTTACCTCCTTCACTTTCCCGTGGATAAT 2 52 1 GTATAAATTCCCCACTCTCCTCACCCTTAACTTGG 5 18 1 TCTCTTTCCTCCTCCTTTTCAGAATATACC 5 248 0 CCCTCAGTTCCCTTTTTACCTCCTCCATAGTCTCC 8 47 0 TACTGAAGGCTTCCTTTACCTTGTCCCTCGCTATG 8 227 0 TCCCCTTCCCTTTCCCTTATAATAC 9 0 1 TCTCTTACCTCCTAACTCTAAAAATT 11 22 0 TTTACAGGTATTTCTTCAGCTTGACACAGATCAGA 12 18 1 GCTTTCCTTTTTCCCTTCTTTTTCTTTT 17 3 1 TCGTTTATAACCTTTGCAACTTCGCGGA 18 3 0 GTTAGTAAATTCTAATCCACTTTACAGGAAATTTC 20 23 1 GGCGGGCTTACCCTTGCTCCCTTTCGGGCCTGGGG 20 107 0 TTTATATATCCTTCTTCTACTTTACGGTGAACGAA 21 81 1 AAAGAATGTTCCTTTTCGGCTTTTCTGATTACTTT 21 128 0 CCCATTCACCTCTTCCGAGTTTAAA 22 30 0 CTACCACTCTTCCGTTTTTCTTATCACCCACCTGA 24 52 0 GGGTTCGAGTCCCGCCCCGCCTACCATTCAAAAAT 24 235 1 *** *** *** * MAP Score: 18.4268 Motif 6 CCAATATCCTCCTAAATAAAAATTTAAAGGAGAGAGAA 0 14 0 CAATTGGCTCAGAAAATTATAACATAAATTTG 1 4 0 CACTCCTTATAAAGATTTACTAAATAAATATTATATTC 3 15 1 ACGATTTATGAATAACTTATAAAACCAAGCTCTTCTGT 4 74 1 TTTTTATTTTCACAACTGAGAACGCCAAGTTAAGGGTG 5 39 0 TTGCTCATTTAGAAAATTAAAAACAAAAGAGTGGAACA 6 29 1 AAGAGTGGAACATTCTTTATAAACTTAAGTAGTATGGT 6 55 1 AGGAAGGTATTATAAGGGAAAGGGAAGGGGA 9 10 0 AAGAAGTGAGAATGTTTTACAATAAAAAATTCTGTCTG 10 28 1 TTCAGCTTGACACAGATCAGAAATAAAATAAATTCTTT 12 32 1 TTTTACCTCTAGAGATTTATAACAAAAATCAAAAAGTG 13 19 1 CTCAGGTCTCCGAGCTTATAAAACAAAAAGAGTCCGA 15 31 0 TTTAAAAATTTTAAAAGAAAAAGAAGGGAAAA 17 18 0 CGCGAAGTTGCAAAGGTTATAAACGAAACCTGTTTAAA 18 12 1 AGGTAGGATTACTTACTAAAAACATAAAAAAATCGTCA 21 13 0 TGAAACCATTAAAAAGTTAGAAAATAAATAGGAGGGGC 21 268 1 GAGCTACCCGCCTTGTTTATAAATAAAAAAAGAGTGGC 24 160 0 ** *** ** *** MAP Score: 15.8284 Motif 7 GCCCTTCTCTCTCCTTTAAATTTTTAT 0 2 1 GTTCTTTCCTCTTTTCCCTTTCACTCTCCTTGACT 2 15 1 GAGTTTACCTCCTTCACTTTCCCGTGGATAATGAG 2 55 1 CAGGAAAACGCTTTCCGCCTTCAATCTGTCCCCAA 5 101 0 TCTCTTTCCTCCTCCTTTTCAGAATATA 5 250 0 CCTCAGTTCCCTTTTTACCTCCTCCATAGTCTCCT 8 46 0 TCTCGCAGTCCTTTTCTTCTCCCTTAAACTCTATG 8 149 0 TCCCCTTCCCTTTCCCTTATAATACCTT 9 3 1 TATTGTAAAACATTCTCACTTCTTTTTCAAAGAGA 10 17 0 TCGTGTCTTTCTTTCGGACTCTTTTTGTTTTATAA 15 18 1 GCTTTCCTTTTTCCCTTCTTTTTCTT 17 1 1 AAGAATGTTCCTTTTCGGCTTTTCTGATTACTTTA 21 127 0 ***** **** * MAP Score: 14.7269 Motif 8 ACTACCTCTACAGGAAAACGCTTTCCGCCTTCAATCTGT 5 107 0 AAAAGGACTGCGAGAAGTTAAAGCCCGTCCTGATAGAAC 8 169 1 TAGCGAGGGACAAGGTAAAGGAAGCCTTCAGTAAACGCT 8 229 1 CGAAAGGGAGCAAGGGTAAGCCCGCCGTCCCGTGCGCAG 20 116 1 TGCGCAGGGTCCTAAAACAAATACCCTCCAGAGGTAATA 20 148 1 AGAATAAATACAAAGGCTAAAAGTCCGCCGAAGGTAGGA 21 43 0 ATAAGAAAAACGGAAGAGTGGTAGCCCCCGTCGTCTAGC 24 63 1 CGTCGTCTAGCCTGGCCTAGGACGCCGGCCTTTCACGCC 24 91 1 ACGCCGGAAACGCGGGTTCAAATCCCGCCGGGGGTGCCA 24 125 1 GCGGCGCTCTCCCAACTGAGCTACCCGCCTTGTTTATAA 24 176 0 AGGCGGAGGTCGCGGGTTCGAGTCCCGCCCCGCCTACCA 24 222 1 * ** * ****** MAP Score: 12.7932 Motif 9 GCCCTTCTCTCTCCTTTAAATT 0 1 1 TTTAAGTTCTTTCCTCTTTTCCCTTTCAC 2 8 1 TCCTCTTTTCCCTTTCACTCTCCTTGACTTT 2 21 1 TGAGTTTACCTCCTTCACTTTCCCGTGGATA 2 54 1 TTTTTGCACTCTTTTTTATTTTCACAACTGA 5 58 0 TTCAATGAGACTCTTCACTTTTGTTAAAAAG 5 203 0 TCTCTTTCCTCCTCCTTTTCAGAATATACC 5 248 0 GAATGTTCCACTCTTTTGTTTTTAATTTTCT 6 39 0 TATTTCCACTCCGTCCTTTTCAAGGATATCC 8 89 0 TCCCCTTCCCTTTCCCTTATAAT 9 2 1 AAAACATTCTCACTTCTTTTTCAAAGAGATT 10 15 0 GCTTTCCTTTTTCCCTTCTTTT 17 1 1 TTTCCTTTTTCCCTTCTTTTTCTTTTAAAAT 17 12 1 TCCTTTTCGGCTTTTCTGATTACTTTAACCT 21 123 0 TTTCTCCACACTTTCCTCTTTGAGTATTTTT 21 220 0 TCAAGCCCCTCCTATTTATTTTCTAAC 21 283 0 GGGGCTACCACTCTTCCGTTTTTCTTATCAC 24 60 0 CCGGGGGTGCCACTCTTTTTTTATTTATAAA 24 152 1 ******* *** MAP Score: 12.0972 Motif 10 TTTGAGTTTACCTCCTTCACTTTCCCGTGGATA 2 52 1 AAAACGCTTTCCGCCTTCAATCTGTCCCCAATA 5 99 0 TCTCTTTCCTCCTCCTTTTCAGAATATACC 5 248 0 TCCCTTTTTACCTCCTCCATAGTCTCCTGAAAG 8 41 0 CGCTCTCCTCCGAAAGTAGAGTGTAA 13 97 0 TTATGACCTCCTTGTTAGGGAATAA 14 6 0 ACCAGACCTCCTTCAAAGGCTCTCATAAT 19 51 0 TTTACACCTCCTGGTTAGTAAATTCTAAT 20 6 1 ATTAATTAGCCCTGCGGCGGGACAGGGTGAACT 20 73 1 AAGGGTAAGCCCGCCGTCCCGTGCGCAGGGTCC 20 127 1 AGTAATCCTACCTTCGGCGGACTTTTAGCCTTT 21 38 1 GCGTGAAAGGCCGGCGTCCTAGGCCAGGCTAGA 24 96 0 ACCCGCGTTTCCGGCGTGAAAGGCCGGCGTCCT 24 109 0 GGTTCAAATCCCGCCGGGGGTGCCACTCTTTTT 24 139 1 ACTGAGCTACCCGCCTTGTTTATAAATAAAAAA 24 168 0 CCCGCGACCTCCGCCTTGTAAGGGCGGCGCTCT 24 205 0 GGTTCGAGTCCCGCCCCGCCTACCATTCAAAAA 24 236 1 ******** * * MAP Score: 9.55506 Motif 11 GCCCTTCTCTCTCCTTTAAATTTT 0 1 1 TTCCCTTACCTCTTTTGCAATTGGCT 1 33 0 TAAGTTCTTTCCTCTTTTCCCTTTCACTCTCCT 2 12 1 CTTTCACTCTCCTTGACTTTTTTGAGTTTACCT 2 32 1 GAGTTTACCTCCTTCACTTTCCCGTGGATAATG 2 55 1 AGTATAAATTCCCCACTCTCCTCACCCTTAACT 5 17 1 TCTCTTTCCTCCTCCTTTTCAGAATATACC 5 248 0 CCTTTTCATCCCTCAGTTCCCTTTTTACCTCCT 8 58 0 TTCTCGCAGTCCTTTTCTTCTCCCTTAAACTCT 8 152 0 GCTTCCTTTACCTTGTCCCTCGCTATGTCCTGA 8 221 0 TCCCCTTCCCTTTCCCTTATAATA 9 1 1 GCTTTCCTTTTTCCCTTCTTTTTCTTTT 17 5 1 GCGGGCTTACCCTTGCTCCCTTTCGGGCCTGGG 20 108 0 CTTTATATATCCTTCTTCTACTTTACGGTGAAC 21 80 1 CTTTAACCTCCCTCAGTTCGTTCACCGTAAAGT 21 99 0 **** *** *** MAP Score: 7.85426 Motif 12 ATAAAAATTTAAAGGAGAGAGAAGGGC 0 6 0 GAAAGGGAAAAGAGGAAAGAACTTAAA 2 6 0 TCAAAAAAGTCAAGGAGAGTGAAAGGGAAAA 2 26 0 ACGGGAAAGTGAAGGAGGTAAACTCAAAAAA 2 49 0 AAGTTAAGGGTGAGGAGAGTGGGGAATTTAT 5 20 0 ACAGATTGAAGGCGGAAAGCGTTTTCCTGTA 5 107 1 GTTTTCCTGTAGAGGTAGTAATGCATGAGGC 5 127 1 ATTCTGAAAAGGAGGAGGAAAGAGA 5 253 1 AGGAGACTATGGAGGAGGTAAAAAGGGAACT 8 46 1 TCCTTGAAAAGGACGGAGTGGAAATAGTCTT 8 94 1 AGAGTTTAAGGGAGAAGAAAAGGACTGCGAG 8 152 1 TTATAAGGGAAAGGGAAGGGGA 9 1 0 AATTCTGTCTGGAGGAAGTTA 10 55 1 TTTAGAGTTAGGAGGTAAGAGA 11 26 1 CTCTACTTTCGGAGGAGAGCG 13 102 1 TATTCCCTAACAAGGAGGTCATAA 14 11 1 GGAGGTGCTCGTGTCTTTCTT 15 0 1 AATACCCTCCAGAGGTAATAA 20 167 1 TGAACGAACTGAGGGAGGTTAAAGTAATCAG 21 108 1 CTTTTGACGCAAAGGAAGTAATAAACTCTCT 21 159 1 AAATACTCAAAGAGGAAAGTGTGGAGAAAGC 21 222 1 AAAATAAATAGGAGGGGCTTGA 21 288 1 CTTTAAACTCGGAAGAGGTGAATGGG 22 29 1 GCCCTTACAAGGCGGAGGTCGCGGGTTCGAG 24 213 1 TGGTAGGCGGGGCGGGACTCGAACCCGCGAC 24 230 0 ********* * MAP Score: 7.47001 Motif 13 GCCCTTCTCTCTCCTTTAAATTTTTATTT 0 5 1 TTTAAGTTCTTTCCTCTTTTCCCTTTCACTC 2 7 1 TTTGAGTTTACCTCCTTCACTTTCCCGTGGATAA 2 52 1 TTCTCCACTCCTTATAAAGATTTAC 3 1 1 AAGTATAAATTCCCCACTCTCCTCACCCTTAACT 5 16 1 CTTTTTGCACTCTTTTTTATTTTCACAACTGAGA 5 56 0 TCTCTTTCCTCCTCCTTTTCAGAATATACC 5 248 0 TTTTCATCCCTCAGTTCCCTTTTTACCTCCTCCA 8 55 0 GACTATTTCCACTCCGTCCTTTTCAAGGATATCC 8 89 0 CTTTAACTTCTCGCAGTCCTTTTCTTCTCCCTTA 8 158 0 TCCCCTTCCCTTTCCCTTATAATA 9 0 1 TGTAAAACATTCTCACTTCTTTTTCAAAGAGATT 10 15 0 GCTTTCCTTTTTCCCTTCTTTTTCTTTT 17 4 1 ACCAGACCTCCTTCAAAGGCTCTCA 19 55 0 GCGGGCTTACCCTTGCTCCCTTTCGGGCCTGGGG 20 107 0 TCAAGCCCCTCCTATTTATTTTCTAACTTTTTA 21 277 0 CCCATTCACCTCTTCCGAGTTTAAA 22 30 0 ** * ******* MAP Score: 1.18796 Motif 14 CTAAATAAAAATTTAAAGGAGAGAGAAGGGC 0 7 0 CTTTAAATTTTTATTTAGGAGGATATTGGA 0 23 1 AAACTCAAAAAAGTCAAGGAGAGTGAAAGGGAAA 2 27 0 ATATTATATTCCCTTAAGGAAATCCCAAGCTGTG 3 42 1 TGTGTGAGATTTATCAAGGAAGAAAAATAACGAT 4 45 1 GCATTACTACCTCTACAGGAAAACGCTTTCCGCC 5 117 0 ATTCTTTATAAACTTAAGTAGTATGGTTGAACTA 6 66 1 CAGGTTGAGCAGCTAAAGTAGGTCCGGGTGACCT 6 119 1 CAGTTTAAGAACTTTCAGGAGACTATGGAGGAGG 8 30 1 TTTCAGGAGACTATGGAGGAGGTAAAAAGGGAAC 8 42 1 GCGAGGGACAAGGTAAAGGAAGCCTTCAGTAAAC 8 231 1 TCTCACTTCTTTTTCAAAGAGATTTAAAC 10 5 0 AAACTTTAAAGGAGGTAATATAG 16 3 1 GTTGCAAAGGTTATAAACGAAACCTGTTTAAATT 18 18 1 TTATGAGAGCCTTTGAAGGAGGTCTGGT 19 52 1 TTCTAATCCACTTTACAGGAAATTTCACGAGGTT 20 32 1 AACTTGAATATCTTAAAGGAGAGTTTATCATCTT 25 10 1 * * ******* * MAP Score: 0.640141