AlignACE 3.0 10/20/99 AlignACE2 -i TM/TM_operons005_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944251784 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 TM0168 91 leucyl-tRNA synthetase #1 TM0221 49 flagellar M-ring protein #2 TM0238 67 hypothetical protein #3 TM0239 39 glucose-1-phosphate adenylyltransferase #4 TM0242 146 hypothetical protein #5 TM0258 300 DNA topoisomerase #6 TM0570 113 cell division protein FtsY #7 TM0671 95 M-related protein #8 TM0675 300 flagellar protein, putative #9 TM0703 42 competence-damage inducible protein, putative #10 TM0916 300 conserved hypothetical protein #11 TM0967 63 integrase-recombinase protein #12 TM1358 50 conserved hypothetical protein #13 TM1361 21 isoleucyl-tRNA synthetase #14 TM1470 54 transcription termination factor Rho #15 TM1476 245 ribosomal protein L36 #16 TM1501 50 ribosomal protein S10 #17 TM1505 115 ribosomal protein S12 #18 TM1506 46 conserved hypothetical protein #19 TM1544 132 rod shape-determining protein MreB #20 TM1546_TM1547 78 TM1546: single stranded DNA-specific exonuclease, putative, TM1547: conserved hypothetical protein #21 TM1551 76 conserved hypothetical protein #22 TM1554 35 hypothetical protein #23 TM1565 151 signal recognition particle protein #24 TM1683 223 cold shock protein #25 TM1684 121 ribosomal protein L31 #26 TM1870 99 septum site-determining protein MinD Motif 1 TCTCTCAAAAAGGAGGGGGAAGCGTCCCCC 16 10 0 ACCTTTCGAAGGGAGGGGTAAGAG 6 4 0 AGGAAATATCAGGAGGTGTAGAC 0 78 1 CACAGGAGGTGTGAAAAGTTT 13 3 1 TCGGGAAACCAGGAGGTAGAAAGG 6 99 1 TATCATATTAAGGAGGGATACTC 10 287 1 ATGAAACCGAGGGAGGTAGATGGACC 7 79 1 AACTAAAAGTGGGAGGGATAAATT 12 4 0 TTCCATCAGTAGGAGGTGAAAAA 14 41 1 GAATCTTTTTAAGAGGTGGAGGAACTG 5 283 1 AAAATTTAACGAGAGGTGGATTATCCT 1 32 1 TTTTTGAGAGAAGAGGGAGGGTGCTTAGAA 16 29 1 TTTTCCAGACAGGAGGTAAGAAAA 2 53 1 GGTAAAACAAAAGAGGGGAACAAAT 7 5 0 TCCGAGCCCGAAGAGGGGAAGATTGGGAGG 24 124 1 TTTTTCGGAAAGGAGCTGGAAGG 0 3 0 AACGAAGGAAGAGAGGTGTGAAGA 3 25 1 CCAAGGCCGTGGGGGGTGTATCTCAAGGGG 10 178 0 TAATTGTTACAGGTGGTGGGAAC 21 63 1 TTACCTCATGAGGAGTGAGAGG 26 2 0 AATATTCATGGAGAGGTGAGGACACG 25 105 1 CATATCACTGAGGAGGGATCGT 9 30 1 GAGTAACGAAAGGAGTGAGGAGGA 15 231 1 TGGCAGCGGAGGAAGGGGTGTTTTGATCCC 8 132 1 TGTGTAGTTTAGTAGGTGGATTAAGTTAAA 23 15 1 GGAAGGCAACAGGGGCGGGAAAGAAAAAGG 14 15 0 TCTTTCGTTAAGGAGGCATGTGTT 24 209 1 GGAGTAAAACGGAAGGGAGG 17 105 1 GGTGTATCTCAAGGGGGATAGGGGGGTCAA 10 164 0 GTGAACGAGAAAGGGTGGGATTG 26 86 1 AAGAACACCGAGGGGTGATGAT 24 2 0 ********** MAP Score: 42.0321 Motif 2 CCTCCCTTCCGTTTTACTCCAA 17 103 0 GTTCCCACCACCTGTAACAATTATA 21 61 0 GCCCCTGTTGCCTTCCATCAGTAGGAGGTGAA 14 29 1 TCAAAACACCCCTTCCTCCGCTGCCAGGAGCT 8 126 0 TTCTAAGCACCCTCCCTCTTCTCTCAAAAAGG 16 27 0 TCCCAATCTTCCCCTCTTCGGGCTCGGAGATA 24 120 0 ACGATCCCTCCTCAGTGATATGATAA 9 26 0 ATTTGTTCCCCTCTTTTGTTTTACCATAT 7 7 1 GGGGGACGCTTCCCCCTCCTTTTTGAGAGAAG 16 10 1 CAGTTCCTCCACCTCTTAAAAAGATT 5 284 0 AGAATCCCTCCGTTCGTTTTTTGATTT 11 5 1 GCTATCACCACCCTTCTGTTAAATTGTAT 20 7 1 CCTCTCACTCCTCATGAGGTAA 26 0 1 AATTTATCCCTCCCACTTTTAGTTTATCAT 12 8 1 TATTATGGTTCCTTCCATCCGGATGACATCTT 15 21 0 TCTTCACACCTCTCTTCCTTCGTTCACTAA 3 19 0 CAATCCCACCCTTTCTCGTTCACCTG 26 83 0 GTTCTATCCTCTCCTTTCTCGATCTCTCA 21 7 1 AGGATAATCCACCTCTCGTTAAATTTTAC 1 30 0 CTCTTACCCCTCCCTTCGAAAGGTTTCC 6 6 1 CCTTTCTACCTCCTGGTTTCCCGACT 6 97 0 AGTTGACCCCCCTATCCCCCTTGAGATACACC 10 162 1 ATCATCACCCCTCGGTGTTCTTATTT 24 4 1 GCTTAAATTTTCTTTCTCCACTTGATTTTTAG 25 36 1 AGACGAATCAGCCCCCGCCCGGGGGCTTAAAT 25 12 1 CCTCCTCACTCCTTTCGTTACTCTGGTTTTTT 15 222 0 AATCTATCCTCCACTATTTAATGATAAA 12 32 0 TTTTCTTACCTCCTGTCTGGAAAAGC 2 51 0 TATTAAAGCCTCTATCGTCTTTGGAACCACGG 5 142 0 CTCCTTTTTCTTTCCCGCCCCTGTTGCCTTCC 14 13 1 TCTGAAGAAGCTCCTCACCTTTT 22 1 0 ****** ** ** MAP Score: 31.0282 Motif 3 ATCATCACCCCTCGGTGTTCTTATTT 24 4 1 CGTGTCCTCACCTCTCCATGAATATTATT 25 102 0 ACGATCCCTCCTCAGTGATATGATAA 9 26 0 GGGGATCAAAACACCCCTTCCTCCGCTGCCAG 8 131 0 CCCTTGAGATACACCCCCCACGGCCTTGGCGG 10 179 1 TTTTTCACCTCCTACTGATGGAAGGC 14 38 0 GAGTATCCCTCCTTAATATGATATTTG 10 283 0 ATTTGTTCCCCTCTTTTGTTTTACCATA 7 6 1 CTCCCAATCTTCCCCTCTTCGGGCTCGGAGAT 24 121 0 GGTCCATCTACCTCCCTCGGTTTCATTCTTC 7 74 0 GGGGGACGCTTCCCCCTCCTTTTTGAGAGAA 16 9 1 CCTCTCACTCCTCATGAGGTAATTTT 26 4 1 GTCTACACCTCCTGATATTTCCTTCT 0 75 0 ATTCTAAGCACCCTCCCTCTTCTCTCAAAAA 16 29 0 GCATGAAAGTTGACCCCCCTATCCCCCTTGAG 10 155 1 CCTTTTTCTTTCCCGCCCCTGTTGCCTTCCAT 14 15 1 AACATCCCCCTGTGTGTTATCAT 9 1 1 CTCTTACCCCTCCCTTCGAAAGGTT 6 3 1 TCCTCCTCACTCCTTTCGTTACTCTGGT 15 227 0 AAACTTTTCACACCTCCTGTG 13 0 0 AGGATAATCCACCTCTCGTTAAATTTTACC 1 29 0 CTTTCATCATCTCTTGATGTTCACAAGT 8 282 0 TTCTATCCTCTCCTTTCTCGATCTCTCAAATT 21 11 1 GATGACATCTTCCTTTCCCATT 15 0 0 TCTTCACACCTCTCTTCCTTCGTTCACTA 3 20 0 AATTTATCCCTCCCACTTTTAGTTTAT 12 5 1 TGCCTCCTTTTTCTTTCCCGCC 14 0 1 AACACATGCCTCCTTAACGAAAGAT 24 208 0 CTCTAACCATAGCCGCCCCTATTGCTATATGC 5 17 0 ********* * MAP Score: 29.0253 Motif 4 TCAGCCATTTGTGATAGAATTTTTCGGAAAGG 0 20 0 ATTTTACCACGTGATATAATTTTCAAC 1 5 0 ATTATATCACGTGGTAAAATTTAACGAGAGGT 1 17 1 TTTAAATAAAGTGTTAAAATTCCTTCAGAGGT 2 19 0 ACGGTTTGCAGTGTTTCCATTCATGCGAGAAG 4 66 1 TTCCTAAAGGATGGTAAAATATGGTAAAACAA 7 25 0 ATCCCCCTGTGTGTTATCATATCACTGAGGAG 9 13 1 GTGGCCCGATGTGATAGAATTTACACAGCAAA 10 255 1 TCAGAAACATGGGCTAGCACTTTGTGCCCATT 15 92 0 CACGCTCCCTGTAGTATAATTTCCTTAGAAAG 18 19 0 ATATTTTCGAGTGATACAATTTAACAGAAGGG 20 20 0 GATACAACAGGTGCTATAATTGTTACAGGTGG 21 47 1 CAATGAATAGGTGGTTTAACTTAATCCACCTA 23 27 0 AGCGCACTTAATGTTACAATTTATTTTCAATG 23 54 0 TGGCTTAGAAGTGCTAAAACTTTAGTAGGTCG 24 75 1 CCCCGCCCGGGGGCTTAAATTTTCTTTCTCCA 25 24 1 AGTCTCACATATGGTACCATTTGGCATGTGAG 25 66 1 *** ** ***** MAP Score: 23.0034 Motif 5 CCTTCCAGCTCCTTTCCGAAAAATTC 0 2 1 AGTAGAACCACCTCTGAAGGAATTTT 2 2 1 TTTTCTTACCTCCTGTCTGGAAAAGCT 2 50 0 TCTTCACACCTCTCTTCCTTCGTT 3 25 0 TCTCTAACCATAGCCGCCCCTATTGCTATATGCC 5 16 0 TGATGAACTATTAAAGCCTCTATCGTCTTTGGAA 5 148 0 CAGTTCCTCCACCTCTTAAAAAGATTC 5 283 0 CTCTTACCCCTCCCTTCGAAAGGTTTCC 6 4 1 CCTTTCTACCTCCTGGTTTCCCGACTA 6 96 0 ATTTGTTCCCCTCTTTTGTTTTACCAT 7 3 1 CCCTCTTTTGTTTTACCATATTTTACCATCCTTT 7 18 1 AGCATGAAAGTTGACCCCCCTATCCCCCTTGAGA 10 154 1 AAACTTTTCACACCTCCTGTG 13 0 0 TCCTTTTTCTTTCCCGCCCCTGTTGCCTTCCATC 14 14 1 TTTTTCACCTCCTACTGATGGAAGGC 14 38 0 GGGGGACGCTTCCCCCTCCTTTTTGAGAGAAGA 16 9 1 TTTAAAACCTCCTCGTCATGATATTT 19 116 0 GCTATCACCACCCTTCTGTTAAATTG 20 2 1 GTTCTATCCTCTCCTTTCTCGATCTCTC 21 4 1 CCTGTAACAATTATAGCACCTGTTGTATCATAGA 21 42 0 GTTCCCACCACCTGTAACAATTATAG 21 60 0 TTCTGAAGAAGCTCCTCACCTTTT 22 0 0 GTGGATTAAGTTAAACCACCTATTCATTGAAAAT 23 30 1 CTCCTCCCAATCTTCCCCTCTTCGGGCTCGGAGA 24 122 0 CGTGTCCTCACCTCTCCATGAATATT 25 105 0 * **** *** ** MAP Score: 21.6259 Motif 6 GTCTACACCTCCTGATATTTCCTTC 0 76 0 AGGATAATCCACCTCTCGTTAAATTTTAC 1 30 0 AGTAGAACCACCTCTGAAGGAATTTTAA 2 8 1 TCTTCACACCTCTCTTCCTTCGTTCA 3 23 0 TAAAAAGATTCTTCTTCCCAAATTCCTGTC 5 264 0 CAGTTCCTCCACCTCTTAAAAAGATTCTT 5 281 0 CTGCCAGGAGCTCCTATCTTTGGAACGCCG 8 108 0 TCTTGGTGAACTCCTCCGCAAGATCCACGT 8 182 0 AAATTAGAATCTTCTCTTAACCTGTTACAT 10 108 1 CGAAGATCACCTTCCCAATAATTTATG 11 46 0 AAACTTTTCACACCTCCTGTG 13 1 0 TTTTTCACCTCCTACTGATGGAAGGCAA 14 36 0 TCCTCCTCACTCCTTTCGTTACTCTGGTT 15 226 0 CACCCTCCCTCTTCTCTCAAAAAGGAGGGG 16 22 0 AGAAAACAGACACCTCTGATCAATTTATCA 17 30 0 TTTAAAACCTCCTCGTCATGATATTTCT 19 114 0 CCTCCGCTTCTCCTTTTCTTTTTTAGTAA 20 59 0 GTTCCCACCACCTGTAACAATTATA 21 61 0 TCTGAAGAAGCTCCTCACCTTTT 22 3 0 TAACTTAATCCACCTACTAAACTACACATG 23 13 0 TAAGTTAAACCACCTATTCATTGAAAATAA 23 36 1 CGAAACACCTCCGAAGGACCTTCTC 23 136 0 ATGTATTGACCTCCTCCCAATCTTCCCCTC 24 136 0 TTGACACATCCACCTACGAAGTGTTATGAT 24 167 1 AATTTTCTTTCTCCACTTGATTTTTAGTCT 25 41 1 CGTGTCCTCACCTCTCCATGAATATTAT 25 103 0 CCTCTCACTCCTCATGAGGTAATTTTT 26 7 1 ********** MAP Score: 19.976 Motif 7 CCTCTCGTTAAATTTTACCACGTGATATAATTTTC 1 13 0 AGTAGAACCACCTCTGAAGGAATTT 2 0 1 AAGATCCTCGAGTTAGAGCACATAATTCTTTCGCA 5 81 1 CAGTTCCTCCACCTCTTAAAAAGATT 5 284 0 TCCCCTCTTTTGTTTTACCATATTTTACCATCCTT 7 16 1 GGAGCATGAAAGTTGACCCCCCTATCCCCCTTGAG 10 152 1 ACATAGCGTTAGGTAAAGCCTCTATTATGGTTCCT 15 40 0 ATGGGCACAAAGTGCTAGCCCATGTTTCTGAGCAG 15 93 1 GAGTCCCGCCAGGCACACCAGATTTTTTTTAATTC 19 56 1 TTTAATTCTTAGGAAAAGCACATTTTGAAGAAGAA 19 83 1 CTTTTTTAGTAATTTTACCATATTTTCGAGTGATA 20 36 0 CACCTGTAACAATTATAGCACCTGTTGTATCATAG 21 43 0 AGGTGGATTAAGTTAAACCACCTATTCATTGAAAA 23 28 1 GACCTACTAAAGTTTTAGCACTTCTAAGCCAAATA 24 71 0 GTTATGATTGAGGAGTACCATCTTTCGTTAAGGAG 24 189 1 TCACATGCCAAATGGTACCATATGTGAGACTAAAA 25 62 0 CAATCCCACCCTTTCTCGTTCACCTG 26 83 0 *** ***** * * MAP Score: 17.0723 Motif 8 GAATTTTTCGGAAAGGAGCTGGAAGG 0 4 0 GGTAAAATTTAACGAGAGGTGGATTATCCT 1 29 1 AGCTTTTCCAGACAGGAGGTAAGAAAA 2 50 1 TTTAGTGAACGAAGGAAGAGAGGTGTGAAGA 3 18 1 TTTTTACTTTACAGGGAAAGAGAAATAGCTGA 4 102 1 AATCTTTTTAAGAGGTGGAGGAACTG 5 284 1 GAAACCTTTCGAAGGGAGGGGTAAGAG 6 5 0 ATGGTAAAACAAAAGAGGGGAACAAAT 7 5 0 ATCTTTTCCTAAAGGATGGTAAAATATGGTAA 7 30 0 TGAAACCGAGGGAGGTAGATGGACC 7 80 1 TCCTGGCAGCGGAGGAAGGGGTGTTTTGATCC 8 129 1 TGTGAACATCAAGAGATGATGAAAG 8 285 1 TATCTCAAGGGGGATAGGGGGGTCAACTTTCA 10 158 0 TTTTTATACAAAAAAATGCGGGCTCTTTCGAG 10 212 0 TGATAAACTAAAAGTGGGAGGGATAAATT 12 7 0 GATGGAAGGCAACAGGGGCGGGAAAGAAAAAG 14 16 0 GCCTTCCATCAGTAGGAGGTGAAAAA 14 38 1 AATGGGAAAGGAAGATGTCATC 15 0 1 ATGTTTCTGAGCAGGATGAGAAAAAATTTTAT 15 114 1 AGAGTAACGAAAGGAGTGAGGAGGA 15 230 1 TTCTCTCAAAAAGGAGGGGGAAGCGTCCCCC 16 9 0 CCTCCTTTTTGAGAGAAGAGGGAGGGTGCTTA 16 24 1 ATTATACTACAGGGAGCGTGAAGCC 18 31 1 CTCCGGATCCAGAGGTTGCGGGTTCGAGTCCC 19 31 1 CAATTTAACAGAAGGGTGGTGATAGC 20 4 0 AAATTACTAAAAAAGAAAAGGAGAAGCGGAGG 20 56 1 GAGAGATCGAGAAAGGAGAGGATAGAAC 21 6 0 AAAAGGTGAGGAGCTTCTTCAG 22 0 1 TAAGAACACCGAGGGGTGATGAT 24 1 0 ATGCCTCCTTAACGAAAGATGGTACTCCTCAA 24 196 0 TAAGCCCCCGGGCGGGGGCTGATTCGTCTCT 25 9 0 AATATTCATGGAGAGGTGAGGACACG 25 105 1 ATTACCTCATGAGGAGTGAGAGG 26 1 0 AAACTGTTCAGGTGAACGAGAAAGGGTGGGAT 26 75 1 ** *** ***** MAP Score: 3.98185