AlignACE 3.0 10/20/99 AlignACE2 -i TM/TM_fusions006_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944251137 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 TM0477 82 outer membrane protein alpha #1 TM0478 30 tyrosyl-tRNA synthetase #2 TM0481 300 conserved hypothetical protein #3 TM0570 113 cell division protein FtsY #4 TM0644 27 hypothetical protein #5 TM0645 59 NH(3)-dependent NAD(+) synthetase, putative #6 TM0671 95 M-related protein #7 TM0711 51 hypothetical protein #8 TM1145 300 conserved hypothetical protein #9 TM1182 73 chromosome segregation SMC protein, putative #10 TM1203 60 maltose ABC transporter, permease protein #11 TM1204 300 maltose ABC transporter, periplasmic maltose-binding protein #12 TM1726 300 alanyl-tRNA synthetase-related protein Motif 1 ATGTGAATAGAGGAGGGGGATTTAC 5 5 0 TTACCAGCATGGGAGGTGAAAAC 8 287 1 GATAACTGCAAGGAGGTGAAAAT 9 3 0 TCTACCCGCAAGGAGGTGAAGGTGGT 11 284 1 CATACGTTCAGGGAGGGAAAACA 10 47 1 GAACACACCAGGGAGGGAAAAAC 4 14 1 GGTAAAACAAAAGAGGGGAACAAAT 6 5 0 AAGAAAAAGAAGAAGGGGAAATTTCCCCTT 2 257 0 CAGACAAAAAAGAAGGGGAAATTTCCCCTT 2 245 1 ATGAAACCGAGGGAGGTAGATGGACC 6 79 1 ACCTTTCGAAGGGAGGGGTAAGAG 3 4 0 TCTAACGTGTGGGAGGGGATCGGT 9 59 1 TCGGGAAACCAGGAGGTAGAAAGG 3 99 1 GAAGAGAACGAAGAGGGAAATTTAGACCAA 11 99 1 TACGTCGCCAGAGAGGTGAGAATATGAAAT 8 31 1 ATCTTGGTGCGAGAGGTGGGACTTGAACCC 2 135 0 GTGATCAATGAGAAGGGAGGTTTGTCCC 0 64 1 AGATGAAAATAGAAAGTGAAGAAAAGGGTC 12 146 1 CTTTATGTCGTGGAGGTAGAAGAGCC 2 284 1 ********** MAP Score: 42.3982 Motif 2 AACTGTGATCAATGAGAAGGGAGGTTTGTCCC 0 60 1 CTTTCGTTCTAACGAGGTGATGGG 1 16 1 CCTGACTTTTAATCAGGGGGTCGTGGGTTCGAA 2 19 1 TCGCACCAAGATAGAGCAGGCGGGTGTAGCTCA 2 153 1 TCCAGACAAAAAAGAAGGGGAAATTTCCCCTTC 2 243 1 TAAAGAAAAAGAAGAAGGGGAAATTTCCCCTTC 2 256 0 AACCTTTCGAAGGGAGGGGTAAGAG 3 2 0 TTAGTCGGGAAACCAGGAGGTAGAAAGG 3 95 1 GAATATGTGAATAGAGGAGGGGGATTTAC 5 6 0 TGGTAAAACAAAAGAGGGGAACAAAT 6 3 0 ATGTTTTAAGGTTGAAGAGGGAG 7 38 1 CTACGTCGCCAGAGAGGTGAGAATATGAAATTA 8 30 1 CTTACCAGCATGGGAGGTGAAAAC 8 286 1 TGATAACTGCAAGGAGGTGAAAAT 9 1 0 ATCTAACGTGTGGGAGGGGATCGGT 9 58 1 CCCTGAACGTATGGAAGGGGCTGGGGACCCAGC 10 27 0 TTTCGAAGAGAACGAAGAGGGAAATTTAGACCA 11 95 1 ATCTACCCGCAAGGAGGTGAAGGTGGT 11 283 1 TCTCCGGTAAAACGAACAGGTAAGTATCCAGAA 12 20 0 TTTACCTACGATAGAAGCGATAGATCTTCTGGT 12 74 0 TTATCGTTTCTTTGAGCTGGGGGATCACCACGT 12 189 0 ** **** ** ** MAP Score: 22.2079 Motif 3 CTTTCGTTCTAACGAGGTGATGGG 1 16 1 CCTGACTTTTAATCAGGGGGTCGTGGGTTC 2 19 1 CAGCGGTGCGAGAGTGGCGGAACTGGCAGA 2 67 1 CACCAAGATAGAGCAGGCGGGTGTAGCTCA 2 156 1 CCAGCTTGCCAAGCTGGGGGTCGCGGGTTC 2 197 1 TTTTTGTCTGGAGCGGGCGACGGGATTCGA 2 225 0 CCAGACAAAAAAGAAGGGGAAATTTCCCCT 2 244 1 AAAGAAAAAGAAGAAGGGGAAATTTCCCCT 2 258 0 AAACCTTTCGAAGGGAGGGGTAAGAG 3 6 0 TATGTGAATAGAGGAGGGGGATTTAC 5 6 0 GGTAAAACAAAAGAGGGGAACAAAT 6 5 0 AGAAGAATGAAACCGAGGGAGGTAGATGGA 6 73 1 TTCTCCGGAGAATCTGGTGAAACTCGCCAA 8 185 1 TGATAACTGCAAGGAGGTGAAAAT 9 4 0 CGTATGGAAGGGGCTGGGGACCCAGCCCCG 10 23 0 TCCATACGTTCAGGGAGGGAAAACA 10 45 1 TTTCGAAGAGAACGAAGAGGGAAATTTAGA 11 95 1 ATCTACCCGCAAGGAGGTGAAGGTGGT 11 283 1 GTGCTAGAGCAACCAGAAGATCTATCGCTT 12 63 1 TGCTCTGGAGAACGTGGTGATCCCCCAGCT 12 178 1 TCGTTTCTTTGAGCTGGGGGATCACCACGT 12 189 0 ********** MAP Score: 10.404 Motif 4 AATTTCCTTTGGACGGGATGGTATAATCACCA 0 20 1 TTCGTTCTAACGAGGTGATGGG 1 18 1 CTTTTAATCAGGGGGTCGTGGGTTCGAATCCC 2 24 1 CACCGCTGGTGACCCGGGTGGGATTCGAACCC 2 43 0 GGTCACCAGCGGTGCGAGAGTGGCGGAACTGG 2 61 1 GCTGGACTTAGAATCCAGTGGGCTGAAGCCCG 2 100 1 GCTCTATCTTGGTGCGAGAGGTGGGACTTGAA 2 138 0 GCACCAAGATAGAGCAGGCGGGTGTAGCTCAG 2 155 1 ACCAGCTTGCCAAGCTGGGGGTCGCGGGTTCG 2 196 1 GAAACCTTTCGAAGGGAGGGGTAAGAG 3 5 0 ATTAGTCGGGAAACCAGGAGGTAGAAAGG 3 94 1 TACATGTTAAAATCCCAGAGGGTGACCACA 5 39 1 TGAAACCGAGGGAGGTAGATGGACC 6 80 1 GATGTTTTAAGGTTGAAGAGGGAG 7 37 1 TGAACGTATGGAAGGGGCTGGGGACCCAGCCC 10 25 0 GTTTCGAAGAGAACGAAGAGGGAAATTTAGAC 11 94 1 CTACCCGCAAGGAGGTGAAGGTGGT 11 285 1 TCAATGCTCTGGAGAACGTGGTGATCCCCCAG 12 174 1 TGAAAGAAAGGGTGCAGGTTGGAAGAAG 12 282 1 ***** ** *** MAP Score: 10.0141 Motif 5 TCAGGGGGTCGTGGGTTCGAATCCCACCCGGGTCACCA 2 31 1 TGAAGCCCGTGTGGGTTCAAGTCCCACCTCTCGCACCA 2 123 1 GCTGGGGGTCGCGGGTTCGAATCCCGTCGCCCGCTCCA 2 209 1 AGGATCTAGTGCGGGTTCTGTACGCTTCAGGTTACAGT 8 73 1 AAAACTTTTACGGGGCTGGGTCCCCAGCCCCTTCCATA 10 13 1 GCTCTGGAGAACGTGGTGATCCCCCAGCTCAAAGAAAC 12 179 1 CTTCAGCCCACTGGATTCTAAGTCCAGCGCGTCTGCCA 2 90 0 AAAAAGAAGAAGGGGAAATTTCCCCTTCTTTTTTGTCT 2 246 0 * *** ** *** * MAP Score: 9.46757 Motif 6 CTCTCGCACCGCTGGTGACCCGGGTGGGATTCGAACC 2 44 0 AATCCAGTGGGCTGAAGCCCGTGTGGGTTCAAGTCCC 2 111 1 CTCGCACCAAGATAGAGCAGGCGGGTGTAGCTCAGTG 2 152 1 GTAGCTCAGTGGTAGAGCACCAGCTTGCCAAGCTGGG 2 178 1 TTCTTTTTTGTCTGGAGCGGGCGACGGGATTCGAACC 2 222 0 TCCACGACATAAAGAAAAAGAAGAAGGGGAAATTTCC 2 261 0 CTTAATATTAGTCGGGAAACCAGGAGGTAGAAAGG 3 88 1 TACAGAACACACCAGGGAGGGAAAAAC 4 0 1 TATTCTACATGTTAAAATCCCAGAGGGTGACCACA 5 34 1 GGTAAAATATGGTAAAACAAAAGAGGGGAACAAAT 6 8 0 CCCGTAGAAGAATGAAACCGAGGGAGGTAGATGGACC 6 68 1 CGGAGAATCTGGTGAAACTCGCCAAGGTATTGAACGT 8 190 1 AAACAGTTTCGAAGAGAACGAAGAGGGAAATTTAGAC 11 89 1 TGGAAATAACGTTGAAAATCTCCTCGGGATGTCGCTT 11 204 1 CGTTTTACCGGAGAAAGATCTGGTGTGCTAGAGCAAC 12 39 1 AATAGAAAGTGAAGAAAAGGGTCAATGCTCTGGAGAA 12 153 1 TCAAGCGATTGAAAGAAAGGGTGCAGGTTGGAAGAAG 12 273 1 * ***** * * ** MAP Score: 9.36213 Motif 7 GGGACAAACCTCCCTTCTCATTGATC 0 66 0 CCGGGTGGGATTCGAACCCACGACCCCCTGATTA 2 28 0 AGAGGTGGGACTTGAACCCACACGGGCTTCAGCC 2 120 0 GGCGACGGGATTCGAACCCGCGACCCCCAGCTTG 2 206 0 GGCTCTTCTACCTCCACGACATAAAGAA 2 282 0 CTCTTACCCCTCCCTTCGAAAGGT 3 0 1 CCTTTCTACCTCCTGGTTTCCCGACT 3 97 0 GTTTTTCCCTCCCTGGTGTGTTCTGT 4 11 0 GGTCCATCTACCTCCCTCGGTTTCATTCT 6 76 0 TAATTTCATATTCTCACCTCTCTGGCGACGTAGT 8 29 0 GTTTTCACCTCCCATGCTGGTAAGAT 8 284 0 ATTTTCACCTCCTTGCAGTTATCAA 9 1 1 ACCGATCCCCTCCCACACGTTAGATTTTATCAT 9 50 0 TGTTTTCCCTCCCTGAACGTATGGA 10 45 0 CGTATGGTAATATCTACCCGCAAGGAGGTGAAGG 11 272 1 AAGTTCTGGATACTTACCTGTTCGTTTTACCGGA 12 17 1 TGGCAAGTTCCTTTTACCTACGATAGAAGCGATA 12 85 0 CTTCTTCCAACCTGCACCCTTTCTTTCA 12 282 0 *** ****** * MAP Score: 3.77711 Motif 8 ATCTTGGTGCGAGAGGTGGGACTTGAACCCA 2 134 0 CAGACAAAAAAGAAGGGGAAATTTCCCCTTC 2 245 1 AAGAAAAAGAAGAAGGGGAAATTTCCCCTTC 2 256 0 TCTTTATGTCGTGGAGGTAGAAGAGCC 2 283 1 CTTTCGAAGGGAGGGGTAAGAG 3 1 0 GTCGGGAAACCAGGAGGTAGAAAGG 3 98 1 AGAACACACCAGGGAGGGAAAAAC 4 13 1 TATGTGAATAGAGGAGGGGGATTTAC 5 5 0 GTAAAACAAAAGAGGGGAACAAAT 6 3 0 TTTTCCTAAAGGATGGTAAAATATGGTAAAA 6 28 0 ATCTCCCGTAGAAGAATGAAACCGAGGGAGG 6 64 1 TACGTCGCCAGAGAGGTGAGAATATGAAATT 8 31 1 TTACCAGCATGGGAGGTGAAAAC 8 287 1 ATAACTGCAAGGAGGTGAAAAT 9 1 0 AATCTAACGTGTGGGAGGGGATCGGT 9 57 1 CCATACGTTCAGGGAGGGAAAACA 10 46 1 TATTGATTCAGAAGAGTAAAATTACTCTTGT 11 32 0 CGAAGAGAACGAAGAGGGAAATTTAGACCAA 11 98 1 ATCTACCCGCAAGGAGGTGAAGGTGGT 11 283 1 GTATCTCAGATTGAGATGAAAATAGAAAGTG 12 133 1 CGAAGAACAAGAAAGAGAAGAGTTCTTCAAG 12 241 1 AAGAAAGGGTGCAGGTTGGAAGAAG 12 285 1 * ********* MAP Score: 1.85505 Motif 9 GGCAGAGCACCTGACTTTTAATC 2 0 1 CTTTTAATCAGGGGGTCGTGGGTTCGAATCCCA 2 24 1 CTCGCACCAAGATAGAGCAGGCGGGTGTAGCTC 2 152 1 GTAGCTCAGTGGTAGAGCACCAGCTTGCCAAGC 2 178 1 AGCTTGCCAAGCTGGGGGTCGCGGGTTCGAATC 2 199 1 TTTTGTCTGGAGCGGGCGACGGGATTCGAACCC 2 221 0 TTTATGTCGTGGAGGTAGAAGAGCC 2 285 1 CCTTTCGAAGGGAGGGGTAAGAG 3 0 0 AATATTAGTCGGGAAACCAGGAGGTAGAAAGG 3 91 1 AGAATATGTGAATAGAGGAGGGGGATTTAC 5 7 0 TAGAATCTTTAGAGGATCTAGTGCGGGTTCTGT 8 61 1 TTCCTTCTCCGGAGAATCTGGTGAAACTCGCCA 8 181 1 TCTAACGTGTGGGAGGGGATCGGT 9 59 1 TGAACGTATGGAAGGGGCTGGGGACCCAGCCCC 10 24 0 ACAGTTTCGAAGAGAACGAAGAGGGAAATTTAG 11 91 1 TCTACCCGCAAGGAGGTGAAGGTGGT 11 284 1 TTTTACCGGAGAAAGATCTGGTGTGCTAGAGCA 12 41 1 TCAATGCTCTGGAGAACGTGGTGATCCCCCAGC 12 174 1 AGCGATTGAAAGAAAGGGTGCAGGTTGGAAGAA 12 276 1 ** ****** * * MAP Score: 1.18283