AlignACE 3.0 10/20/99 AlignACE2 -i AA/AA_operons014_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944235441 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 aq_087 122 putative protein #1 aq_090 27 putative protein #2 hth 63 transcriptional regulator (H-T-H) #3 folK 300 folate biosynthesis 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase #4 rpsO 58 ribosomal protein S15 #5 aldH2_ntrC3 413 aldH2: aldehyde dehydrogenase, ntrC3: transcriptional regulator (NtrC family) #6 hksP4 161 histidine kinase sensor protein #7 hksP2_phoB 284 hksP2: histidine kinase sensor protein, phoB: transcriptional regulator (PhoB-like) #8 aq_1111 216 hypothetical protein #9 aq_1791 40 putative protein #10 ntrC2 209 transcriptional regulator (NtrC family) Motif 1 TCTTGGGGTTCCTTTTCCTTTACCTTCACCC 8 12 1 TAAGTCTCAACCTCTCCCTTATTACCCAGAG 5 103 0 TCTCTTTTCCTTTCTCTTTACCACTTT 1 8 1 ACCGCTACAACCTTCCTCTTTTTCAAAAACC 7 69 1 ATTACAACATCCGCTTTCTTTAAAATATCGT 7 12 1 CCTACTAATTACCCTCTCTTTCTGCCTCTTA 7 98 1 GCTTCACACCTCCTTTTGGTTTTCAC 0 106 0 TCTTTTCATTCCGCTTCCTTGACTGGGTACT 5 215 0 GAAGTTCAATCCATGCCCTTTTAACAGGGTG 5 277 0 TTAATTTAAAACATTTCCTTAACCGAAACTT 7 191 0 CCGTGCCAAACTTTTCCCTTTGATTTTCAAC 0 57 0 AGGCCTAGATCCACTCCCTCTACTTCTGCCC 8 114 1 CCTTCATCTCACACCTCCTTACTTAAGGTTT 7 145 1 GTTCATACTAACCTCTCCTTAGAATATCTTA 3 203 1 TTCCCATATACCTCCGTCTTTTCTTAGAATT 4 36 0 CACCAATAGCACCTTCTCTTGCAACGCTTCC 3 82 1 TGGATCTAGGCCTTTGTCTTATAGCACCTGC 8 96 0 GTACATTTTTCCGTTTACTTTTAAAAGCATT 5 42 0 CAGGAACCGCATATTCCCTTACCGCATCCGA 5 146 0 CGAGATGTCTACCTTTCCTATTTTTCCCACG 8 65 1 GACACTTACTATTTCCTCTTTTGAAGGGTTC 5 378 0 TTTTTCATTCCTGCGCTCTTTTGCTTTTACA 10 93 1 ** ******** MAP Score: 20.3039 Motif 2 TTCTACCTTTCCGGGTTTACTCGCAATTGCTC 2 41 0 TCGGTCTTCCGAACTTGTCCCTCTTTACTAGATGGGGATA 3 14 1 CCAATAGCACCTTCTCTTGCAACGCTTCCGGCGAGCTTTT 3 84 1 ATTATGGGTATATCTACTTCAATCCTTCCAATTTTTAGCT 3 156 1 GTAAATGTAAGTCCTGATACGCCTCTCCTCTGGGTAATAA 5 76 1 CGGTAAGTCTCAACCTCTCCCTTATTACCCAGAGGAGAGG 5 97 0 GGATTGTTCACAACCGCTACAACCTTCCTCTTTTTCAAAA 7 57 1 TCTCTTTCTGCCTCTTATTCCTGACTGCTAAGACCTTCAT 7 112 1 GCCGAGATGTCTACCTTTCCTATTTTTCCCACGGCAGGTG 8 63 1 TCCACTCCCTCTACTTCTGCCCTTTTACCCGAGCAGGAGA 8 123 1 TTTTTTTACTTTGCTTTTACTCTCCTGCTCGGGTAAAAGG 8 143 0 TTCCGTCAAGCCCCTTTTTCATTCCTGCGCTCTTTTGCTT 10 79 1 * ** * * ** *** MAP Score: 17.0956 Motif 3 TCTCTTTTCCTTTCTCTTTACCACTTT 1 8 1 CTTCACACCTCCTTTTGGTTTTCACATTTTTTA 0 98 0 ACCGCTACAACCTTCCTCTTTTTCAAAAACCTA 7 69 1 CTACTTCAATCCTTCCAATTTTTAGCTTTGGTA 3 169 1 GCGGAGTTATCCTTTCAATATTCGGAATTATAG 10 28 1 GAACGAAGCGCCTTACCTTTTCACTGTTTAAAA 10 151 0 TTTTCAAGTTCCTTAGAATTTCAGTGTCCAGAA 6 61 0 CAAACTTTTCCCTTTGATTTTCAACAAGGGCGT 0 49 0 TCTTGGGGTTCCTTTTCCTTTACCTTCACCCTG 8 12 1 ACTAACCTCTCCTTAGAATATCTTAAAACAAAT 3 209 1 CCGTCAAGCCCCTTTTTCATTCCTGCGCTCTTT 10 81 1 TTCCCATATACCTCCGTCTTTTCTTAGAATTGA 4 34 0 AAGACATGACACTTACTATTTCCTCTTTTGAAG 5 383 0 CCGCATATTCCCTTACCGCATCCGAACTTCGTC 5 138 0 GAGATGTCTACCTTTCCTATTTTTCCCACGGCA 8 66 1 ATTTTTGACACCTGATTCTTTTCAAGTTCCTTA 6 79 0 AAATTCCTTATAATATTTATTTGCTCAA 4 5 1 TTCCTGCGCTCTTTTGCTTTTACAAAGCCTATC 10 100 1 AGCTTTTTTTACTTTGCTTTTACTCTCCTGCTC 8 153 0 **** * ***** MAP Score: 15.0917 Motif 4 AAACGCCCTTGTTGAAAATCAAAGGGAAAAGTTTGGCACG 0 47 1 ATTAAAAAATGTGAAAACCAAAAGGAGGTGTGAAGC 0 96 1 AAAGTGGTAAAGAGAAAGGAAAAGAGA 1 3 0 TTTATCAGGTGCAATAAAGGAAAGTTCAAGT 3 279 1 TCTCCTCTGGGTAATAAGGGAGAGGTTGAGACTTACCGGG 5 99 1 AAAATATCGTTCTTCAGCTGAGAGGGATTGTTCACAACCG 7 33 1 GTAGGTTTTTGAAAAAGAGGAAGGTTGTAGCGGTTGTGAA 7 63 0 AAGTAAGGAGGTGTGAGATGAAGGTCTTAGCAGTCAGGAA 7 129 0 CCGAAGGTCAGGGTGAAGGTAAAGGAAAAGGAACCCCAAG 8 13 0 CACGGCAGGTGCTATAAGACAAAGGCCTAGATCCACTCCC 8 92 1 TCCTGCTCGGGTAAAAGGGCAGAAGTAGAGGGAGTGGATC 8 121 0 TTTTACCCGAGCAGGAGAGTAAAAGCAAAGTAAAAAAAGC 8 145 1 GATAGGCTTTGTAAAAGCAAAAGAGCGCAGGAATGAAAAA 10 93 0 AAAAAGGTTTTAAACAGTGAAAAGGTAAGGCGCTTCGTTC 10 144 1 * ** ***** ** MAP Score: 13.8625 Motif 5 CAACACTGCAACACCTTCCTGAAACGCCCTTGTTG 0 26 1 TCCGTGCCAAACTTTTCCCTTTGATTTTCAACAAG 0 54 0 GCTTCACACCTCCTTTTGGTTTTCACATTTTT 0 100 0 TCTCTTTTCCTTTCTCTTTACCACTTT 1 7 1 CACCAATAGCACCTTCTCTTGCAACGCTTCCGGCG 3 82 1 GTTCATACTAACCTCTCCTTAGAATATCTTAAAAC 3 203 1 ACTTGAACTTTCCTTTATTGCACCTGATAAA 3 279 0 CTTCCCATATACCTCCGTCTTTTCTTAGAATTGAG 4 33 0 ATCAGGACTTACATTTACTTCGTACATTTTTCCGT 5 59 0 GTAAGTCTCAACCTCTCCCTTATTACCCAGAGGAG 5 100 0 ACTCTTACCTCCATTTTTGTTCGTTGTATTT 6 6 1 AAATTACAACATCCGCTTTCTTTAAAATATCGT 7 8 1 AACCGCTACAACCTTCCTCTTTTTCAAAAACCTAC 7 68 1 CCTACTAATTACCCTCTCTTTCTGCCTCTTATTCC 7 98 1 GACTGCTAAGACCTTCATCTCACACCTCCTTACTT 7 134 1 CTCTTGGGGTTCCTTTTCCTTTACCTTCACCCTGA 8 11 1 TAGATCCACTCCCTCTACTTCTGCCCTTTTACCCG 8 119 1 TTCCGAACCTCCGTTTCGTGTGGTGGACTAA 9 19 0 ****** *** * MAP Score: 13.7918 Motif 6 CCTTGTTGAAAATCAAAGGGAAAAGTTTGGCA 0 53 1 AAAGTGGTAAAGAGAAAGGAAAAGAGA 1 5 0 CTCTTTGGCTACAACAAGGGAGCTTTTACAGG 2 10 1 GCGAGTAAACCCGGAAAGGTAGAA 2 49 1 AAGATATTCTAAGGAGAGGTTAGTATGAACTT 3 201 0 TTATCAGGTGCAATAAAGGAAAGTTCAAGT 3 280 1 CTGGGTAATAAGGGAGAGGTTGAGACTTACCG 5 105 1 TGTCAGTACCCAGTCAAGGAAGCGGAATGAAA 5 211 1 GAAATAATAACCATCGAGGGAATTCCCGAAGA 5 244 1 CAGCCCGGACAAATAGTGGAAGCCTATGCACT 5 331 1 CCGAACCCTTCAAAAGAGGAAATAGTAAGTGT 5 376 1 CAACGAACAAAAATGGAGGTAAGAGT 6 4 0 TAGGTTTTTGAAAAAGAGGAAGGTTGTAGCGG 7 70 0 TAAGAGGCAGAAAGAGAGGGTAATTAGTAGGT 7 97 0 AGCAGTCAGGAATAAGAGGCAGAAAGAGAGGG 7 109 0 GTCAGGGTGAAGGTAAAGGAAAAGGAACCCCA 8 15 0 CTGCCGTGGGAAAAATAGGAAAGGTAGACATC 8 68 0 AAAAGGGCAGAAGTAGAGGGAGTGGATCTAGG 8 117 0 TTTACCCGAGCAGGAGAGTAAAAGCAAAGTAA 8 146 1 *** ***** ** MAP Score: 13.7659 Motif 7 TCCCTCTTTACTAGATGGGGATATCTGTAGCCTGTTC 3 31 1 AAGCGTTGCAAGAGAAGGTGCTATTGGTGTCGTTTCC 3 74 0 AATTCTAAGAAAAGACGGAGGTATATGGGAAG 4 36 1 AGTTCGGATGCGGTAAGGGAATATGCGGTTCCTGCAC 5 143 1 GACGGAAATCCTGTGAGGAGCTGTCAGTACCCAGTCA 5 190 1 ACTATTTGTCCGGGCTGGCAGTATCCGCACTGGGGAA 5 311 0 TTAAAACCTTAAGTAAGGAGGTGTGAGATGAAGGTCT 7 142 0 TATTTTTCCCACGGCAGGTGCTATAAGACAAAGGCCT 8 83 1 TATCCTTTCAATATTCGGAATTATAGGTCTTATACTA 10 35 1 GAAAAAGGGGCTTGACGGAATTATCGGTAGTATAAGA 10 62 0 * ** ** * *** * MAP Score: 13.2793 Motif 8 TCTCTTTTCCTTTCTCTTTACCACTT 1 1 1 CTCTTTGGCTACAACAAGGGAGCTT 2 0 1 ACTTGAACTTTCCTTTATTGCACCTGATAAAGCT 3 276 0 GAACCGCATATTCCCTTACCGCATCCGAACTTCGT 5 139 0 TACAACCTTCCTCTTTTTCAAAAACCTACTAATTA 7 74 1 ACTAATTACCCTCTCTTTCTGCCTCTTATTCCTGA 7 101 1 TTTAAAACATTTCCTTAACCGAAACTTAAAATTTG 7 183 0 ACTCTTGGGGTTCCTTTTCCTTTACCTTCACCCTG 8 10 1 TCTACTTCTGCCCTTTTACCCGAGCAGGAGAGTAA 8 132 1 TTCCGTCAAGCCCCTTTTTCATTCCTGCGCTCTTT 10 79 1 CATTCCTGCGCTCTTTTGCTTTTACAAAGCCTATC 10 98 1 ******* ** * MAP Score: 6.77208 Motif 9 TTTACCTTCACCCTGACCTTCGGACACATAA 8 30 1 ACTCTTACCTCCATTTTTGTTC 6 1 1 AGACCTTCATCTCACACCTCCTTACTTAAGG 7 142 1 GGTTCCTTTTCCTTTACCTTCACCCTGACCT 8 18 1 GCTTCACACCTCCTTTTGGTTTT 0 109 0 TTCCTGACTGCTAAGACCTTCATCTCACACC 7 129 1 TCTCTTTTCCTTTCTCTTTACCAC 1 3 1 TTCTACCTTTCCGGGTTTACT 2 52 0 CAGCCGAGATGTCTACCTTTCCTATTTTTCC 8 61 1 CCCGGTAAGTCTCAACCTCTCCCTTATTACC 5 108 0 GAGTAAAAATCCGAACCCTTCAAAAGAGGAA 5 366 1 CTACTAATTACCCTCTCTTTCTGCCTCTTAT 7 99 1 GTATATCTACTTCAATCCTTCCAATTTTTAG 3 163 1 ACTTGAACTTTCCTTTATTGCA 3 288 0 TTCCGAACCTCCGTTTCGTGTG 9 28 0 TTTAAAAGCATTCCTACCTCCATAAGTTTTA 5 23 0 GATTTGCGGAGTTATCCTTTCAATATTCGGA 10 23 1 TTCACAACCGCTACAACCTTCCTCTTTTTCA 7 63 1 TTGCAACACTGCAACACCTTCCTGAAACGCC 0 23 1 TTTTACTTTGCTTTTACTCTCCTGCTCGGGT 8 149 0 AAGGCCTAGATCCACTCCCTCTACTTCTGCC 8 113 1 **** ****** MAP Score: 6.67229 Motif 10 AAAGTGGTAAAGAGAAAGGAAAAGAGA 1 2 0 AAAAATTGGAAGGATTGAAGTAGATATACCCATAAT 3 156 0 ATTCTAAGAAAAGACGGAGGTATATGGGAAG 4 37 1 AAACGGAAAAATGTACGAAGTAAATGTAAGTCCTGA 5 57 1 TCTGGGTAATAAGGGAGAGGTTGAGACTTACCGGGA 5 104 1 CGAAGTTCGGATGCGGTAAGGGAATATGCGGTTCCT 5 140 1 GAAGAACACCCTGTTAAAAGGGCATGGATTGAACTT 5 271 1 AGGTGTGAAGACATGACACTTACTAT 5 397 0 GTTTTTGAAAAAGAGGAAGGTTGTAGCGGTTGTGAA 7 63 0 CAGGAATAAGAGGCAGAAAGAGAGGGTAATTAGTAG 7 99 0 TTAAGTAAGGAGGTGTGAGATGAAGGTCTTAGCAGT 7 135 0 GGTCAGGGTGAAGGTAAAGGAAAAGGAACCCCAAGA 8 12 0 CGGCTGTTATGTGTCCGAAGGTCAGGGTGAAGGTAA 8 31 0 ATAGCACCTGCCGTGGGAAAAATAGGAAAGGTAGAC 8 71 0 CTCGGGTAAAAGGGCAGAAGTAGAGGGAGTGGATCT 8 120 0 GAGCGCAGGAATGAAAAAGGGGCTTGACGGAATTAT 10 75 0 AGGTTTTAAACAGTGAAAAGGTAAGGCGCTTCGTTC 10 148 1 * * ***** *** MAP Score: 2.09342