AlignACE 3.0 10/20/99 AlignACE2 -i TM/TM_operons005_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944251767 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 TM0168 91 leucyl-tRNA synthetase #1 TM0221 49 flagellar M-ring protein #2 TM0242 146 hypothetical protein #3 TM0258 300 DNA topoisomerase #4 TM0570 113 cell division protein FtsY #5 TM0671 95 M-related protein #6 TM0675 300 flagellar protein, putative #7 TM0703 42 competence-damage inducible protein, putative #8 TM0916 300 conserved hypothetical protein #9 TM0967 63 integrase-recombinase protein #10 TM1358 50 conserved hypothetical protein #11 TM1361 21 isoleucyl-tRNA synthetase #12 TM1470 54 transcription termination factor Rho #13 TM1476 245 ribosomal protein L36 #14 TM1544 132 rod shape-determining protein MreB #15 TM1547 78 conserved hypothetical protein #16 TM1565 151 signal recognition particle protein #17 TM1684 121 ribosomal protein L31 #18 TM1870 99 septum site-determining protein MinD Motif 1 CCTTCCAGCTCCTTTCCGAAAAA 0 3 1 GTCTACACCTCCTGATATTTCCT 0 78 0 AGGATAATCCACCTCTCGTTAAATTTT 1 32 0 CAGTTCCTCCACCTCTTAAAAAGATTC 3 283 0 CTCTTACCCCTCCCTTCGAAAGGT 4 4 1 CCTTTCTACCTCCTGGTTTCCCGA 4 99 0 ATTTGTTCCCCTCTTTTGTTTTACC 5 5 1 GGTCCATCTACCTCCCTCGGTTTCAT 5 79 0 ACGATCCCTCCTCAGTGATATG 7 30 0 TTGACCCCCCTATCCCCCTTGAGATACACC 8 164 1 CCCCTTGAGATACACCCCCCACGGCCTTGG 8 178 1 GAGTATCCCTCCTTAATATGATA 8 287 0 AATTTATCCCTCCCACTTTTAGTT 10 4 1 AAACTTTTCACACCTCCTGTG 11 3 0 CCTTTTTCTTTCCCGCCCCTGTTGCCTTCC 12 15 1 TTTTTCACCTCCTACTGATGGAA 12 41 0 TCCTCCTCACTCCTTTCGTTACTC 13 231 0 TTTAACTTAATCCACCTACTAAACTACACA 16 15 0 CGTGTCCTCACCTCTCCATGAATATT 17 105 0 CCTCTCACTCCTCATGAGGTAA 18 2 1 CAATCCCACCCTTTCTCGTTCAC 18 86 0 ********** MAP Score: 30.1359 Motif 2 TCTGATATTATTAACTTTGAGAAGGAAATATCAGGA 0 56 1 TTGAGAAGGAAATATCAGGAGGTGTAGAC 0 72 1 CGTGGTAAAATTTAACGAGAGGTGGATTATCCT 1 26 1 CAGTGTTTCCATTCATGCGAGAAGGATATTTTTACT 2 74 1 GAAGAATCTTTTTAAGAGGTGGAGGAACTG 3 280 1 CCGGAAACCTTTCGAAGGGAGGGGTAAGAG 4 4 0 AAATATGGTAAAACAAAAGAGGGGAACAAAT 5 5 0 TCCAACGTGGATCTTGCGGAGGAGTTCACCAAGATG 6 178 1 CAGTGATATGATAACACACAGGGGGATGTT 7 4 0 GTGTGTTATCATATCACTGAGGAGGGATCGT 7 21 1 CACAGCAAATATCATATTAAGGAGGGATACTC 8 278 1 TTAGTTTATCATTAAATAGTGGAGGATAGATT 10 28 1 GTTGCCTTCCATCAGTAGGAGGTGAAAAA 12 35 1 GTGCTAGCCCATGTTTCTGAGCAGGATGAGAAAAAA 13 104 1 CAGAGTAACGAAAGGAGTGAGGAGGA 13 229 1 AAGAAGAAATATCATGACGAGGAGGTTTTAAA 14 110 1 AAAATTACTAAAAAAGAAAAGGAGAAGCGGAGG 15 7 0 CCAGGTTTCCAATCATCTAAGGAGTAGCGCACTTAA 16 75 0 GAGAAGCGTCTAATATGAGAGAAGGTCCTTCGGAGG 16 118 1 TGTGAGACTAAAAATCAAGTGGAGAAAGAAAATTTA 17 39 0 CGTAATAATATTCATGGAGAGGTGAGGACACG 17 99 1 TACAAAAAATTACCTCATGAGGAGTGAGAGG 18 5 0 TTTATTGTACAATATTTTGAGGAGAAAACTGTTCAG 18 50 1 ** ******** MAP Score: 20.5508 Motif 3 CCTTCCAGCTCCTTTCCGAAAAATTCT 0 6 1 ACCTCCTGATATTTCCTTCTCAAAGTTAATA 0 64 0 AGGATAATCCACCTCTCGTTAAATTTT 1 32 0 GAAGTCCTTTTTGCTCTTCTCATCGTCACAG 2 24 1 ATCGTCACAGTGATCTTTTTCACGGTTTGCA 2 45 1 TAAAGTAAAAATATCCTTCTCGCATGAATGG 2 82 0 TTTCAGCTATTTCTCTTTCCCTGTAAAGTAA 2 105 0 CTTAAAAAGATTCTTCTTCCCAAATTCCTGT 3 265 0 CTCTTACCCCTCCCTTCGAAAGGT 4 3 1 GGTCCATCTACCTCCCTCGGTTTCAT 5 79 0 GAAAGAAATTAGAATCTTCTCTTAACCTGTT 8 103 1 CGAAGATCACCTTCCCAATAATTTAT 9 47 0 AATTTATCCCTCCCACTTTTAGTT 10 3 1 TGCCTCCTTTTTCTTTCCCGCCCCTGTT 12 7 1 TTCCCGCCCCTGTTGCCTTCCATCAGTAGGA 12 24 1 TCCGGATGACATCTTCCTTTCCCATT 13 5 0 GCCTCTATTATGGTTCCTTCCATCCGGATGA 13 27 0 CTTCTTCAAAATGTGCTTTTCCTAAGAATTA 14 85 0 CCTCCGCTTCTCCTTTTCTTTTTTAGTA 15 7 1 CTCTCATATTAGACGCTTCTCATTAATACCA 16 108 0 ACACCTCCGAAGGACCTTCTCTCATATTAGA 16 126 0 GGGGCTTAAATTTTCTTTCTCCACTTGATTT 17 33 1 ** ******** MAP Score: 14.7017 Motif 4 GTCTACACCTCCTGATATTTCC 0 79 0 AGGATAATCCACCTCTCGTTAAATTTTA 1 31 0 GAACCCCATTCGAGCTCTCCGTGGTGCGAA 3 110 0 CTCTTACCCCTCCCTTCGAAAGG 4 3 1 CCTTTCTACCTCCTGGTTTCCCG 4 100 0 CACCGCGAGGCGATCTGTCCAAGAACGTCG 6 17 0 TTACCTGCTTCCATCAATCCCGAAGATTGT 6 51 0 TCACTCTATACCATGTCTCCTAACAGCGGC 6 82 1 ATCAAAACACCCCTTCCTCCGCTGCCAGGA 6 129 0 ACGATCCCTCCTCAGTGATAT 7 31 0 GAAAGTTGACCCCCCTATCCCCCTTGAGAT 8 159 1 GAGTATCCCTCCTTAATATGAT 8 288 0 AATTTATCCCTCCCACTTTTAGT 10 3 1 AAACTTTTCACACCTCCTGTG 11 4 0 TCAACAATAACCCGATCTCCAGGAACCAGT 13 149 0 TTTCTATAAACGATTCGTCCTCGAGTGAGA 13 194 0 TCCTCCTCACTCCTTTCGTTACT 13 232 0 CGGAGTCCAGCGCTCTATCCGTTGAG 14 6 0 GGCTTAAATTTTCTTTCTCCACTTGATTTT 17 35 1 CGTGTCCTCACCTCTCCATGAATATTA 17 104 0 CCTCTCACTCCTCATGAGGTA 18 1 1 CAATCCCACCCTTTCTCGTTCACCTGAA 18 81 0 ********** MAP Score: 13.712 Motif 5 CTCTTACCCCTCCCTTCGAAAGGTTTC 4 7 1 TGAAAGTTGACCCCCCTATCCCCCTTGAGA 8 158 1 AGAATCCCTCCGTTCGTTTTTTGAT 9 5 1 GCTATCACCACCCTTCTGTTAAATTG 15 62 0 AATTTATCCCTCCCACTTTTAGTTTAT 10 7 1 CCTTCCAGCTCCTTTCCGAAAAATTC 0 6 1 CAATCCCACCCTTTCTCGTTCACC 18 85 0 CGCTGCCAGGAGCTCCTATCTTTGGAACGC 6 110 0 TGCCTCCTTTTTCTTTCCCGC 12 1 1 TCCTCCTCACTCCTTTCGTTACTCTGG 13 228 0 ATCAAAACACCCCTTCCTCCGCTGCCAGGA 6 129 0 TTTTTCACCTCCTACTGATGGAAGGC 12 38 0 ATTAAGTTAAACCACCTATTCATTGAAAAT 16 34 1 CGCCCCTGTTGCCTTCCATCAGTAGGAGGT 12 28 1 TAACCATAGCCGCCCCTATTGCTATATGCC 3 16 0 ATTTGTTCCCCTCTTTTGTTTTACCAT 5 7 1 CCTCCGAAGGACCTTCTCTCATATTAGACG 16 124 0 ACCATATTTTACCATCCTTTAGGAAAAGAT 5 32 1 GAACTATTAAAGCCTCTATCGTCTTTGGAA 3 148 0 ********** MAP Score: 11.4132 Motif 6 GCACATAATTCTTTCGCACCACGGAGAGCTCGAATGGGGTTCA 3 98 1 TAGTTCATCACGTTGAGAACCTGGATTCCAAGATAGCTCGATT 3 172 1 GGAAAGTTCCGAATCGAATCAGGGTTGGACGGAGTACGACAGG 3 227 1 CCCCTCCCTTCGAAAGGTTTCCGGTTTCTTAGACACACACTCC 4 16 1 CTTAATATTAGTCGGGAAACCAGGAGGTAGAAAGG 4 88 1 AACACCCCTTCCTCCGCTGCCAGGAGCTCCTATCTTTGGAACG 6 111 0 AGGAAGGGGTGTTTTGATCCCCGGTGCACTTGAGATGTCCAAC 6 141 1 TCGTTGCACAGAGAGGTTTCCAGGCGAACGCGCGTGTCATCAC 6 215 1 GAGATACACCCCCCACGGCCTTGGCGGGCTCGAAAGAGCCCGC 8 184 1 AAAACCCCGCCAAATGTGGCCCGATGTGATAGAATTTACACAG 8 240 1 ATGGGAAAGGAAGATGTCATCCGGATGGAAGGAACCATAATAG 13 11 1 AAATTTTATAAGACTGGTTCCTGGAGATCGGGTTATTGTTGAA 13 137 1 GAACCCGCAACCTCTGGATCCGGAGTCCAGCGCTCTATCCGTT 14 13 0 GTTGCGGGTTCGAGTCCCGCCAGGCACACCAGATTTTTTTTAA 14 45 1 CTCCTTAGATGATTGGAAACCTGGTATTAATGAGAAGCGTCTA 16 87 1 AGAGACGAATCAGCCCCCGCCCGGGGGCTTAAATTTTCTTTCT 17 10 1 ATTTTGAGGAGAAAACTGTTCAGGTGAACGAGAAAGGGTGGGA 18 63 1 * * ** ** * * ** MAP Score: 8.73968 Motif 7 CTCAAAGTTAATAATATCAGATTTTTCAGCCATTT 0 42 0 CCCCTCTTTTGTTTTACCATATTTTACCATCCTTT 5 17 1 CCAGGAACCAGTCTTATAAAATTTTTTCTCATCCT 13 126 0 AGTCCCGCCAGGCACACCAGATTTTTTTTAATTCT 14 57 1 TTAATTCTTAGGAAAAGCACATTTTGAAGAAGAAA 14 84 1 TTTTTTAGTAATTTTACCATATTTTCGAGTGATAC 15 28 1 GTAATTTTTTGTACGATCACATTTTATTGTACAAT 18 28 1 ATCACATTTTATTGTACAATATTTTGAGGAGAAAA 18 43 1 ** * ** ***** MAP Score: 6.57228 Motif 8 TATTAACTTTGAGAAGGAAATATCAGGAGGTGTAGAC 0 64 1 ACTTTACAGGGAAAGAGAAATAGCTGAAAGAACCGCAGATGGTGT 2 107 1 TGAAAGGGCATATAGCAATAGGGGCGGCTATGGTTAG 3 2 1 TAATTCTTTCGCACCACGGAGAGCTCGAATGGGGTTCACCCGTGG 3 103 1 GACAGGAATTTGGGAAGAAGAATCTTTTTAAGAGGTGGAGGAACT 3 264 1 CCATCCTTTAGGAAAAGATAGATCTCCCGTAGAAGAATGAAACCG 5 43 1 CTCACCGACGTTCTTGGACAGATCGCCTCGCGGTGTTTAACAATC 6 12 1 CACTTGAGATGTCCAACGTGGATCTTGCGGAGGAGTTCACCAAGA 6 167 1 ATTCTGAACGAACTTGTGAACATCAAGAGATGATGAAAG 6 271 1 TTCATTGTTTGAGACAGATGTATCATGAAAAGGGTTC 8 2 0 CGCCAAGGCCGTGGGGGGTGTATCTCAAGGGGGATAGGGGGGTCA 8 165 0 GATAGAATTTACACAGCAAATATCATATTAAGGAGGGATACTC 8 267 1 AATGGGAAAGGAAGATGTCATCCGGATGGAAGGAACCA 13 3 1 TCTAAACATAGCGTTAGGTAAAGCCTCTATTATGGTTCCTTCCAT 13 35 0 TTTTTTTTAATTCTTAGGAAAAGCACATTTTGAAGAAGAAATATC 14 78 1 AGCACATTTTGAAGAAGAAATATCATGACGAGGAGGTTTTAAA 14 99 1 * *** * *** * * MAP Score: 6.29466 Motif 9 GAAGGAAATATCAGGAGGTGTAGAC 0 76 1 CATAATTCTTTCGCACCACGGAGAGCTCGAATGG 3 101 1 AAGAATCTTTTTAAGAGGTGGAGGAACTG 3 281 1 CGGAAACCTTTCGAAGGGAGGGGTAAGAG 4 5 0 AAGAATGAAACCGAGGGAGGTAGATGGACC 5 75 1 GGACAGATCGCCTCGCGGTGTTTAACAATCTTCG 6 27 1 TACCATGTCTCCTAACAGCGGCGTTCCAAAGATA 6 90 1 GATAGGAGCTCCTGGCAGCGGAGGAAGGGGTGTT 6 120 1 CCAACGTGGATCTTGCGGAGGAGTTCACCAAGAT 6 179 1 GGGGGGTGTATCTCAAGGGGGATAGGGGGGTCAA 8 164 0 CCCGCCAAGGCCGTGGGGGGTGTATCTCAAGGGG 8 178 0 TCGGGCCACATTTGGCGGGGTTTTTATACAAAAA 8 230 0 TAACATAAATTATTGGGAAGGTGATCTTCG 9 43 1 TTGCCTTCCATCAGTAGGAGGTGAAAAA 12 36 1 GGACTCCGGATCCAGAGGTTGCGGGTTCGAGTCC 14 28 1 TGAGAGAAGGTCCTTCGGAGGTGTTTCG 16 133 1 ATTTAAGCCCCCGGGCGGGGGCTGATTCGTCTCT 17 10 0 GTAATAATATTCATGGAGAGGTGAGGACACG 17 100 1 ** **** ** ** MAP Score: 2.9053 Motif 10 CCTTCCAGCTCCTTTCCGAAAAA 0 3 1 CCTCCTGATATTTCCTTCTCAAAGTTAATA 0 64 0 GTCTACACCTCCTGATATTTCCT 0 78 0 AGGATAATCCACCTCTCGTTAAATTTT 1 32 0 CAGTTCCTCCACCTCTTAAAAAGATTC 3 283 0 CTCTTACCCCTCCCTTCGAAAG 4 2 1 ACGTTTTTGAACCAGTCCTTCGGAGTGTGT 4 50 0 CCTTTCTACCTCCTGGTTTCCCGA 4 99 0 ATTTGTTCCCCTCTTTTGTTTTACC 5 5 1 GGTCCATCTACCTCCCTCGGTTTCAT 5 79 0 GATCAAAACACCCCTTCCTCCGCTGCCAGG 6 130 0 CTTTCATCATCTCTTGATGTTCACA 6 285 0 AACATCCCCCTGTGTGTTAT 7 0 1 ACGATCCCTCCTCAGTGATATGA 7 29 0 AGCATGAAAGTTGACCCCCCTATCCCCCTT 8 154 1 CCCCTTGAGATACACCCCCCACGGCCTTGG 8 178 1 GAGTATCCCTCCTTAATATGATAT 8 286 0 CGAAGATCACCTTCCCAATAATTTA 9 48 0 AAACTTTTCACACCTCCTGTG 11 3 0 TCCTTTTTCTTTCCCGCCCCTGTTGCCTTC 12 14 1 TTTTTCACCTCCTACTGATGGAA 12 41 0 TCCTCCTCACTCCTTTCGTTAC 13 233 0 GCTATCACCACCCTTCTGTTAAATTG 15 62 0 AGAGACGAATCAGCCCCCGCCCGGGGGC 17 8 1 GAAAGAAAATTTAAGCCCCCGGGCGGGGGC 17 22 0 CGTGTCCTCACCTCTCCATGAATATT 17 105 0 CCTCTCACTCCTCATGAGGTAAT 18 3 1 CAATCCCACCCTTTCTCGTTCACCTGA 18 82 0 ********** MAP Score: 1.39133