AlignACE 3.0 10/20/99 AlignACE2 -i HI/HI_operons008_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944237321 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 HI0063 247 poly(A) polymerase (pcnB) #1 HI0265 82 dihydroneopterin aldolase, putative #2 HI0317 218 aspartyl-tRNA synthetase (aspS) #3 HI0366 101 fimbrial biogenesis and twitching motility protein, putative #4 HI0367 71 conserved hypothetical protein #5 HI0405 72 pyridoxine kinase, putative #6 HI0406 89 acetyl-CoA carboxylase, carboxyl transferase (accA) #7 HI0408 171 ABC transporter, ATP-binding protein (yebM) #8 HI0463 115 oxygen-independent coproporphyrinogen III oxidase, putative #9 HI0686 292 glycerol-3-phosphatase transporter (glpT) #10 HI0836 181 lysyl-tRNA synthetase analog (genX) #11 HI0859 127 ATP-dependent Clp protease, ATPase subunit (clpB) #12 HI1211 300 lysyl-tRNA synthetase (lysU) #13 HI1302 147 asparaginyl-tRNA synthetase (asnS) #14 HI1334 126 cell division protein (ftsJ) #15 HI1335 90 cell division protein (ftsH) #16 HI1336 111 dihydropteroate synthase (folP-1) #17 HI1464 111 dihydropteroate synthase (folP-2) #18 HI1465 137 cell division ftsH-related protein Motif 1 AAGAGCGGTGATTTTTACCGCTCTTTTTTGATCTAAA 5 22 1 AGTGCGGTCGATTTTTACGGTCTTTTTAGGATAACAA 6 61 1 AATGCGGTTAATTTTTAGAGTGATTTTGGTGGGCGAT 16 82 0 AATGCGGTTAATTTTTAGAGTGATTTTGGTGGGCGAT 17 82 0 TTTTTATATTATTTTTTCTTACATTTTGGGAATCGGG 9 18 0 TTACTTTCTTATTTTTTATTTTCTTTTATGATTCGCA 9 200 1 TTTAGGACTCATTTTTAAGGCGATTTTATTGTTCATA 13 54 1 AGAGCGGTTGATTTTCTCAATGTTTTTTACTGATTTC 14 28 1 CCAACACTATATTTTTATGGAAAATTTCCTTCATTAA 13 98 1 AATTTTTTCTCCAACTTTTTAATTATGTG 9 273 0 AATTTGTTGTATTTTTTTTATACTTGTAACCTTTTTT 18 41 0 TTAATAAGAAATTTTTATTTTCTTTGTTTACTTTAGG 12 252 0 AAGGCTTTATTTTTTCCTAATGATTTTGTTCTTGGAT 16 32 1 AAGGCTTTATTTTTTCCTAATGATTTTGTTCTTGGAT 17 32 1 TATATTTTCTCCTTTGTTGTATATTTAGAT 5 52 0 AACACTTCACATTTTTGATTTTTTTTACTTTCTTATT 9 176 1 CTTGTAACCTTTTTTTAACCTAGATTTAACTTTTGGG 18 19 0 AGGCAAGTGGATTTTCCTGCATTTTTAAATGCAAAAA 0 57 0 TTTTCTTTGCTTTTTTGATTGATTTGTCAGCATAAAT 2 110 1 AATATTTCATTTTTTCTCTTGAAATTTATTCAACCGA 11 47 1 ATTGCGACAGATTTTTGAGCATAATTAAAAGAGTACA 2 179 1 TAGGGGATTTATTTTTACTTTCTATTGATTGGAGGAT 10 13 0 AATCTTCTATTTTTTGTAGTCGTTTCGCCTATATT 14 101 0 AAAATGCGTTATTTTCCCCAACCATTGTTGAAAACAC 7 135 1 AGTGCGGTTAATTTTAACCGCACTTTTGTATTTTTCA 0 20 0 ATATCATCAGATTTTTTGTTATATTATGCCGCTTGTT 2 38 0 GCACTTTTGTATTTTTCAATAGAATGAA 0 1 0 CATTGTGCCATTTTTCGTTACAAATTAATAACGTNTT 10 70 1 TGAATAATGCTTTTTCCATAGGAATGAATTTTCTTTA 7 51 0 ****** **** MAP Score: 40.7594 Motif 2 TAACATTCTAAAAGAGCGGTGATTTTTACCGCTCT 5 11 1 AAAATCGCCGTGTTTTCAACAATGGT 7 155 0 TCCTAATAAAAAAGAGCGGTTGATTTTCTCAATGT 14 16 1 AAAATGCGGTTAATTTTTAGAGTGA 16 96 0 AAAATGCGGTTAATTTTTAGAGTGA 17 96 0 TAAATGCAAAAAAGTGCGGTTAATTTTAACCGCAC 0 34 0 ATTCCTTGATAAAGTGCGGTCGATTTTTACGGTCT 6 49 1 CAATATCACAAAATCGCTTTCTTTTACACTCAAAA 9 95 0 ATATGGCACAAAAAAGCCTTTATTTTGAATATTTA 2 71 1 GAATTCTATAAAAATGCGTTATTTTCCCCAACCAT 7 125 1 AGAAATACTTAATATGCTTTAATTTGTATGAAAAC 3 51 0 CCTTTCTTCGGAAAGGCTTTATTTTTTCCTAATGA 17 20 1 CCTTTCTTCGGAAAGGCTTTATTTTTTCCTAATGA 16 20 1 TTTTACACTCAAAATGTTGTTAATTTTGGCCGCAC 9 74 0 TTCCAACAACAAAACGGAGTAAATTATTCTTACTT 0 127 1 GGCTTGTGAAAACAAGCCTTTTATTGATTTTAGAG 8 23 1 ACTCGTTTAGAATGAGCACTTGTTTTGGCAACCTC 0 203 0 TTCATTTCTTAATTTGTTGTATTTTTTTTATACTT 18 53 0 TGTGTTATTAACAAGTTTTCAATTTGGAAAAGTA 8 91 0 *** ** ** *** MAP Score: 34.1652 Motif 3 GTTTGGCAAGAAGACAAAAAAATCAAAAGAG 0 175 1 AATAAATTTCAAGAGAAAAAATGAAATATTT 11 46 0 TATACAACAAAGGAGAAAATATA 5 59 1 CAAAATCATTAGGAAAAAATAAAGCCTTTCC 16 29 0 CAAAATCATTAGGAAAAAATAAAGCCTTTCC 17 29 0 CCCAAAATGTAAGAAAAAATAATATAAAAAG 9 25 1 AGTTAAATCTAGGTTAAAAAAAGGTTACAAG 18 25 1 TACCTTTCCTAAGTTAAAAAATTTCGTCACA 15 51 0 AAAAATAAGAAAGTAAAAAAAATCAAAAATG 9 185 0 CGGTCTTTTTAGGATAACAAA 6 78 1 AATCAATAGAAAGTAAAAATAAATCCCCTAA 10 20 1 AAAGGTTACAAGTATAAAAAAAATACAACAA 18 44 1 ACAGCTCCTAAAGTAAACAAAGAAAATAAAA 12 246 1 TATTCGACATAAGAGAGAAAATCTTGAGAAT 7 98 1 ATCATAAAAGAAAATAAAAAATAAGAAAGTA 9 201 0 CCCTAAAATAAAAAAGTTTTCAGCA 7 4 1 GTATAAAAAAAATACAACAAATTAAGAAATG 18 55 1 CAAGCGGCATAATATAACAAAAAATCTGATG 2 40 1 TTGTATATTTAGATCAAAAAAGAGCGGTAAA 5 35 0 ATTAAAAAGTTGGAGAAAAAATT 9 279 1 TTTTTGATATAAGTAAGAATAATTTACTCCG 0 141 0 TTGATAGATAAAATCAAAATATTTCATTTTT 11 30 1 CAAATCAATCAAAAAAGCAAAGAAAAGTAAT 2 105 0 **** ****** MAP Score: 27.5115 Motif 4 GGTTAATTTTAACCGCACTTTTGTATTTTTCAAT 0 18 0 GGTTAAAATTAACCGCACTTTTTTGCATTTAAAA 0 38 1 TATTCAAAATAAAGGCTTTTTTGTGCCATATCAT 2 68 0 CAAGTTCACATACCCCTATGTTTTCATACAAATT 3 32 1 AGCCTCCATTTACCGCCTAATTATTTGATTAAAT 4 45 1 CGGTAAAAATCACCGCTCTTTTAGAATGTTAG 5 8 0 CGGTGATTTTTACCGCTCTTTTTTGATCTAAATA 5 27 1 TTGGGGAAAATAACGCATTTTTATAGAATTCTCA 7 122 0 AAAATCGCCGTGTTTTCAACAATGGT 7 155 0 AATATCACAAAATCGCTTTCTTTTACACTCAAAA 9 95 0 TAATAAGGCTTTACCCTATTTTATTTAGGACTCA 13 31 1 GACTCATTTTTAAGGCGATTTTATTGTTCATAAC 13 59 1 AAGGTAAACTATCGGCAATTTTAT 13 133 1 TGAGAAAATCAACCGCTCTTTTTTATTAGGAATC 14 13 0 TTGTAGTCGTTTCGCCTATATTTGGGTACAATCT 14 89 0 CTCATCAAAGCCTTTCTTCGGAAAGGCTTT 16 6 1 CTTTCTTCGGAAAGGCTTTATTTTTTCCTAATGA 16 21 1 CTCATCAAAGCCTTTCTTCGGAAAGGCTTT 17 6 1 CTTTCTTCGGAAAGGCTTTATTTTTTCCTAATGA 17 21 1 ****** * ** * MAP Score: 25.614 Motif 5 AAACATTGAGAAAATCAACCGCTCTTTTTT 14 23 0 AAAGACCGTAAAAATCGACCGCACTTTATC 6 56 0 ATCGCCCACCAAAATCACTCTAAAAATTAA 16 82 1 ATCGCCCACCAAAATCACTCTAAAAATTAA 17 82 1 AAGAGCGGTAAAAATCACCGCTCTTTTAGA 5 17 0 ATGGTTGGGGAAAATAACGCATTTTTATAG 7 130 0 AAAATCGCCGTGTTTTCAAC 7 161 0 AAGTGCGGTTAAAATTAACCGCACTTTTTT 0 32 1 AATCACTCTAAAAATTAACCGCATTTT 16 94 1 AATCACTCTAAAAATTAACCGCATTTT 17 94 1 TCATTAGGAAAAAATAAAGCCTTTCCGAAG 16 25 0 TCATTAGGAAAAAATAAAGCCTTTCCGAAG 17 25 0 ACAATCTGTCAAATTCAAGCCGAAGCTAAT 14 66 0 TATGAACAATAAAATCGCCTTAAAAATGAG 13 61 0 TGTGTCATCTAAATTTACCCTTTTGAAACA 9 247 0 TGGGGAAGCCAAATTCGCTCTTATGTATTA 12 16 1 ATAGAAAGTAAAAATAAATCCCCTAAAAGG 10 25 1 ATAAAATTGCCGATAGTTTACC 13 135 0 AAAATCGCGTATATTCAATA 13 0 1 GTATTTCGCTATAATCGCCCACCAAAATCA 17 69 1 GTATTTCGCTATAATCGCCCACCAAAATCA 16 69 1 GTTTTCATACAAATTAAAGCATATTAAGTA 3 51 1 TCAATATCACAAAATCGCTTTCTTTTACAC 9 101 0 ATAAATATTCAAAATAAAGGCTTTTTTGTG 2 77 0 AAATTTAATCAAATAATTAG 4 61 0 GGAAAAGTATAAATTAACCTTGTGTAAAGA 8 70 0 ********** MAP Score: 24.7919 Motif 6 TTATTAATTTATAAAAAAGGTAAACAAT 12 282 1 TTTTCTTGTAAAGAAAAAGGCAAGTGGATTTTC 0 78 0 TGGCAAGAAGACAAAAAAATCAAAAGAGGTTGC 0 178 1 TTTCTTTACAAGAAAAGAGCCAAGTCATTTATT 0 95 1 ATAAGAAAGTAAAAAAAATCAAAAATGTGAAGT 9 179 0 TTACAAGTATAAAAAAAATACAACAAATTAAGA 18 49 1 AAATTTCAAGAGAAAAAATGAAATATTTTGATT 11 41 0 CGAAACGACTACAAAAAATAGAAGATT 14 109 1 CAAAATCATTAGGAAAAAATAAAGCCTTTCCGA 17 27 0 CAAAATCATTAGGAAAAAATAAAGCCTTTCCGA 16 27 0 GACAAATCAATCAAAAAAGCAAAGAAAAGTAAT 2 105 0 GTGATCTACCTCAAAAAAGCTAAGATTGAGTTG 10 139 1 TCATAAAAGAAAATAAAAAATAAGAAAGTAAAA 9 198 0 ATCGTCTAATACATAAGAGCGAATTTGGCTTCC 12 19 0 TAAATATTCGACATAAGAGAGAAAATCTTGAGA 7 94 1 CCTAAAGTAAACAAAGAAAATAAAAATTTCTTA 12 252 1 TTTTATTGATAGATAAAATCAAAATATTTCATT 11 25 1 TAAATATACAACAAAGGAGAAAATATA 5 55 1 AATCAATAGAAAGTAAAAATAAATCCCCTAAAA 10 20 1 TTCATTCTATTGAAAAATACAAAAGTGCGGTT 0 9 1 GATTCCCAAAATGTAAGAAAAAATAATATAAAA 9 21 1 CCTGCCCAATTAAAAGGAGGAAAA 3 87 1 * ******* ** MAP Score: 23.036 Motif 7 TTTTGTCTTCTTGCCAAACAAATTTTTGATATA 0 161 0 TCAAAAGAGGTTGCCAAAACAAGTGCTCATTCT 0 197 1 TACCCCTATGTTTTCATACAAATTAAAGCATAT 3 42 1 AGCATTGCCAAATCAAGTATTGGACTT 4 4 1 GCTTGCCCAACCAGTGAAAACCATT 6 2 1 TTTGTTATCCTAAAAAGACCGTAAAAA 6 72 0 AATAATGCTTTTTCCATAGGAATGAATTTTCTT 7 53 0 ATGCGTTATTTTCCCCAACCATTGTTGAAAACA 7 138 1 GATATCCTCCAATCAATAGAAAGTAAA 10 4 1 CGAATTTGGCTTCCCCAACCAAT 12 0 0 AACAATAAAATCGCCTTAAAAATGAGTCCTAAA 13 54 0 TGAAGGAAATTTTCCATAAAAATATAGTGTTGG 13 98 0 AAATAAAGCCTTTCCGAAGAAAGGCTTTGATGA 16 11 0 GGCTTTATTTTTTCCTAATGATTTTGTTCTTGG 16 34 1 AAATAAAGCCTTTCCGAAGAAAGGCTTTGATGA 17 11 0 GGCTTTATTTTTTCCTAATGATTTTGTTCTTGG 17 34 1 ** ** ** **** MAP Score: 16.5351 Motif 8 GCAAGAAGACAAAAAAATCAAAAGAGGTTGCCA 0 180 1 AAGCGGCATAATATAACAAAAAATCTGATGATA 2 41 1 TTATGCTGACAAATCAATCAAAAAAGCAAAGAA 2 112 0 GAGCATAATTAAAAGAGTACAAAGGATTTTGAA 2 195 1 ATCATCTCTAAAATCAATAAAAGGCTTGTTTTC 8 30 0 AATGTAAGAAAAAATAATATAAAAAGTGTAATC 9 30 1 TAAGAAAGTAAAAAAAATCAAAAATGTGAAGTG 9 178 0 AAAAGAAAATAAAAAATAAGAAAGTAAAAAAAA 9 194 0 GATATCCTCCAATCAATAGAAAGTAAAAATAA 10 9 1 TTGATTTTATCTATCAATAAAAATTTGATGATA 11 14 0 TCGCTTCAATAAATCGATCTAAATCCCCGTCTA 12 107 0 CTAAAGTAAACAAAGAAAATAAAAATTTCTTAT 12 253 1 CCTTTTTTATAAATTAATAAGAAATTTTTATTT 12 269 0 ATCGCCTTAAAAATGAGTCCTAAATAAAATAGG 13 45 0 AAGCTAATTGAAATCAGTAAAAAACATTGAGAA 14 41 0 AATATAGGCGAAACGACTACAAAAAATAGAAGA 14 101 1 TCCAAGAACAAAATCATTAGGAAAAAATAAAGC 16 35 0 TCGCCCACCAAAATCACTCTAAAAATTAACCGC 16 83 1 TCCAAGAACAAAATCATTAGGAAAAAATAAAGC 17 35 0 GATTATAGCGAAATACATCCAAGAACAAAATCA 17 52 0 TCGCCCACCAAAATCACTCTAAAAATTAACCGC 17 83 1 CTAGGTTAAAAAAAGGTTACAAGTATAAAAAAA 18 33 1 AAGTATAAAAAAAATACAACAAATTAAGAAATG 18 53 1 **** * ** *** MAP Score: 15.1818 Motif 9 AAGTGCGGTTAAAATTAACCGCACTTTTTTG 0 32 1 TATTCTACCCAAAATTGATAGCATACGCCTA 1 39 1 TTTATGCTGACAAATCAATCAAAAAAGCAAA 2 115 0 ATTTTTGAGCATAATTAAAAGAGTACAAAGG 2 189 1 GCAGGAAGAAATACTTAATATGCTTTAATTT 3 61 0 TTCTTCCTGCCCAATTAAAAGGAGGAAAA 3 82 1 CCCTAAAATAAAAAAGTTTTCAGCA 7 4 1 TATCATCTCTAAAATCAATAAAAGGCTTGTT 8 33 0 TATACTTTTCCAAATTGAAAACTTGTTAATA 8 89 1 AAGTGCGGCCAAAATTAACAACATTTTGAGT 9 72 1 GAAAGTAAAAAAAATCAAAAATGTGAAGTGT 9 177 0 AAAGAAAATAAAAAATAAGAAAGTAAAAAAA 9 195 0 TAGATGACACATAATTAAAAAGTTGGAGAAA 9 266 1 GATATCCTCCAATCAATAGAAAGTAAAAA 10 8 1 TTTTTCGTTACAAATTAATAACGTNTTTTAT 10 80 1 ATTGATAGATAAAATCAAAATATTTCATTTT 11 29 1 GTAAACAAAGAAAATAAAAATTTCTTATTAA 12 258 1 ACCTTTTTTATAAATTAATAAGAAATTTTTA 12 272 0 AAACATTGAGAAAATCAACCGCTCTTTTTTA 14 22 0 AATCACTCTAAAAATTAACCGCATTTT 16 94 1 AATCACTCTAAAAATTAACCGCATTTT 17 94 1 AAAAATACAACAAATTAAGAAATGAAAATCA 18 62 1 ******** ** MAP Score: 8.71625 Motif 10 CATTCTATTGAAAAATACAAAAGTGCGGTT 0 12 1 TTAAATGCAAAAAAGTGCGGTTAATTTTAA 0 40 0 TTTTGCATTTAAAAATGCAGGAAAATCCAC 0 58 1 TCTTGTAAAGAAAAAGGCAAGTGGATTTTC 0 78 0 TCTTTACAAGAAAAGAGCCAAGTCATTTAT 0 97 1 AAAAAAATCAAAAGAGGTTGCCAAAACAAG 0 190 1 TAATATAACAAAAAATCTGATGATATGGCA 2 49 1 CAAATCAATCAAAAAAGCAAAGAAAAGTAA 2 106 0 CAAGAGAGATAAAAAGGTTATTTATGCTGA 2 136 0 CTAACATTCTAAAAGAGCGGTGATTTTTAC 5 10 1 TTTAGATCAAAAAAGAGCGGTAAAAATCAC 5 29 0 TTCAATTTGGAAAAGTATAAATTAACCTTG 8 78 0 AAATAATATAAAAAGTGTAATCATTGTAGG 9 41 1 AAAAAAAATCAAAAATGTGAAGTGTTTCAC 9 172 0 TTACTGTTTCAAAAGGGTAAATTTAGATGA 9 243 1 ACACATAATTAAAAAGTTGGAGAAAAAATT 9 272 1 TAAATCCCCTAAAAGGGTAATATTGTGTGG 10 39 1 GATCTACCTCAAAAAAGCTAAGATTGAGTT 10 141 1 ATCTATCAATAAAAATTTGATGATAGGTT 11 9 0 TTTCAAGAGAAAAAATGAAATATTTTGATT 11 41 0 TTAATTTATAAAAAAGGTAAACAAT 12 285 1 TTCCTAATAAAAAAGAGCGGTTGATTTTCT 14 15 1 AAACGACTACAAAAAATAGAAGATT 14 111 1 TCTAGGTTAAAAAAAGGTTACAAGTATAAA 18 32 1 ********** MAP Score: 5.87569 Motif 11 TATTGAAAAATACAAAAGTGCGGTTAAAATTAACCGCACTT 0 17 1 TTTTCTTGTAAAGAAAAAGGCAAGTGGATTTTCCTGCATTT 0 70 0 TTTTCTTTACAAGAAAAGAGCCAAGTCATTTATTTCCAACA 0 94 1 TATTTCCAACAACAAAACGGAGTAAATTATTCTTACTTATA 0 124 1 TGGCAAGAAGACAAAAAAATCAAAAGAGGTTGCCAAAACAA 0 178 1 GGCATAATATAACAAAAAATCTGATGATATGGCACAAAAAA 2 45 1 TTTGAGCATAATTAAAAGAGTACAAAGGATTTTGAA 2 192 1 CTAACATTCTAAAAGAGCGGTGATTTTTACCGCTCTTT 5 7 1 CCCTAAAATAAAAAAGTTTTCAGCATTCAGACTACAG 7 6 1 AATTATCATCTCTAAAATCAATAAAAGGCTTGTTTTCACAA 8 26 0 CCCAAAATGTAAGAAAAAATAATATAAAAAGTGTAATCATT 9 25 1 AAACAAAGAAAATAAAAATTTCTTATTAATTTATAAAAAAG 12 260 1 ATGAGTCCTAAATAAAATAGGGTAAAGCCTTATTAATATTG 13 25 0 GGTTATGAACAATAAAATCGCCTTAAAAATGAGTCCTAAAT 13 53 0 AAGGATTCCTAATAAAAAAGAGCGGTTGATTTTCTCAATGT 14 10 1 ATAATCGCCCACCAAAATCACTCTAAAAATTAACCGCATTT 16 79 1 ATAATCGCCCACCAAAATCACTCTAAAAATTAACCGCATTT 17 79 1 TAAATCTAGGTTAAAAAAAGGTTACAAGTATAAAAAAAATA 18 28 1 ** **** * * ** MAP Score: 2.16872 Motif 12 GTAATCATTGTAGGGAAGTGCGGCCAAAAT 9 57 1 TTTGAGTGTAAAAGAAAGCGATTTTGTGAT 9 96 1 TTATGCAAATGGCGAAAGCCGAAATCAAAT 11 95 1 AAATCAAATTGAGGAAAGTGT 11 116 1 ATTGGTTGGGGAAGCCAAATTCGCTC 12 6 1 CCCCGTAAACAGGGGAAGGCAAGAAATTTC 12 159 0 CCCTGTTTACGGGGAAAGTGGCGCGAACGT 12 175 1 AAATAAAATAGGGTAAAGCCTTATTAATAT 13 27 0 AAGCCTTTCCGAAGAAAGGCTTTGATGAG 16 9 0 CATTAGGAAAAAATAAAGCCTTTCCGAAGA 16 24 0 AAGCCTTTCCGAAGAAAGGCTTTGATGAG 17 9 0 CATTAGGAAAAAATAAAGCCTTTCCGAAGA 17 24 0 ********** MAP Score: 0.0492283