AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_fusions029_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944241630 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 aroI 275 shikimate kinase #1 tyrA 48 prephenate dehydrogenase #2 trpE 215 anthranilate synthase #3 aroB 61 3-dehydroquinate synthase #4 aroF 69 chorismate synthase #5 cheR 236 methyl-accepting chemotaxis proteins (MCPs) methyltransferase #6 ndk 115 nucleoside diphosphate kinase #7 gerCA 162 heptaprenyl diphosphate synthase component I #8 mtrB 21 tryptophan operon RNA-binding attenuation protein (TRAP) #9 mtrA 187 GTP cyclohydrolase I #10 hbs 300 non-specific DNA-binding protein HBsu #11 aroC 111 3-dehydroquinate dehydratase #12 sigX 203 RNA polymerase ECF-type sigma factor (sigma-X) #13 resD 80 two-component response regulator #14 resC 135 essential protein similar to cytochrome c biogenesis protein #15 resA 131 essential protein similar to cytochrome c biogenesis protein #16 ypuL 91 similar to hypothetical proteins #17 dacB 122 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 5*) #18 ypuI 54 similar to hypothetical proteins from B. subtilis #19 ypuG 280 similar to hypothetical proteins #20 yqeG 300 similar to hypothetical proteins Motif 1 GGATGAAAAAAGGAAAAAAAGGAATATTCGT 10 5 1 TTAGAAAGGAAAACCAGAAGCAAAGGCTTTTTCTCC 19 90 1 TCGGAGCGCAGAAGCGGGAGAAAAAGCCTTTGCTTC 19 106 0 TCTCCCTGAAAAAGGGAGAGTAAACG 17 0 0 TTCCTATGCCAAATCTAAAAAAAACGCCGTTT 16 6 0 AAAAAGTAAGAAATGTGAAATGAACGTGCAATGATA 15 70 1 CCATACGCGGGAATAAAGATAAAAAGGGCAGGCCAA 14 105 1 ATATGTGCTAGAATCGAAATTAAATGTATTCATTGG 9 146 1 ATGCCCCGCTAAAAGCAAAGTGAATGCCCTGTCAGG 9 112 0 AGAAGGGATAAAAGGAAAAAAGAACGCCCGGCCTCT 19 46 1 ATTTTGAAAGAAAGAAAAAGGGAAGGGTGCGGGTT 20 275 1 GACAGCGATTAAATACACAAGAAAGGCCGCATAAAG 14 53 0 ATGGTACACTAAAAGCACATTAAAGGAGGAAGCACC 19 10 0 AAAACAAGCTATACTAGGACAAAAAGACAGCGAGAC 5 197 1 TGATACCTGCGTAAGCGAATGAAAAGATAAAACTCA 7 88 1 CCAACGATCTAAAATCAGCTGAAAAGCTGATTTTTT 5 136 1 AGAAATGATAATAAACGAACTGAATGTATCCTTTTG 10 258 1 TAGCAACTAAAAAAGAGCCTTAAAGGGCTCTTT 11 7 0 GCAAGTAAGAGAAAGACAATTAAACGGCTTTTTAAG 10 177 0 GCATTAGAGAAAATGTGGAGAATATGAGAAAACTGT 3 22 1 ACGATTTGATAAAATGAAAGTAACAGAAGGAAAGCA 13 44 1 CATACGACAAAAAAGTGAACGGAGGGGTTTCAA 12 180 1 GAATCAGACTGAACTGTGAAGAAATGATAATAAACG 10 239 1 *** *** *** * MAP Score: 19.4319 Motif 2 TTTTCTGTATGATAAATAGGAAGGGAGGAATGGCG 0 10 0 AGTTGAGTTAGAGAATAGGGTAGCAGAGAATGAGT 2 64 1 AGAAAATGTGGAGAATATGAGAAAACTGTCGAGGG 3 29 1 GCGTTAATGCGATGAAGGGAGAAGAAGTC 4 50 1 GCTATACTAGGACAAAAAGACAGCGAGACTGGGAG 5 204 1 TGCGTAAGCGAATGAAAAGATAAAACTCATACATA 7 95 1 GGATGAAAAAAGGAAAAAAAGGAATATTC 10 4 1 CCTGTCTCAGAAAAAAATGAGAGCAAGTAAGAGAA 10 200 0 ACTGAACTGTGAAGAAATGATAATAAACGAACTGA 10 246 1 TTCATACGACAAAAAAGTGAACGGAGGGGTTTCAA 12 178 1 CTCACGATTTGATAAAATGAAAGTAACAGAAGGAA 13 41 1 CGGGAATAAAGATAAAAAGGGCAGGCCAAACCG 14 112 1 AACTCTCCCTGAAAAAGGGAGAGTAAACG 17 4 0 CCATAGAAGGGATAAAAGGAAAAAAGAACGCCCGG 19 42 1 TGCGCCTAAAGAAAAACTGAGCAAAAAAATTTCGA 20 218 0 TTTTGAAAGAAAGAAAAAGGGAAGGGTGCGGGTT 20 276 1 ** *** ** ** * MAP Score: 15.9838 Motif 3 TATCATACAGAAAAAGACCCTTCCATCGAAGA 0 31 1 AAAATCAGCTGAAAAGCTGATTTTTTTATTGA 5 146 1 TTTCTTCACAGAAAAGCCCCTTTCTAAGGGGC 9 54 1 CTTGAAATATGAAAAGCCCCTTAGAAAGGGGC 9 69 0 TAACACATATAAAAAGCCATATCAAGCATTTT 10 87 0 AGTTTTTCTTAAAAAGCCGTTTAATTGTCTTT 10 170 1 AGCAAGTAAGAGAAAGACAATTAAACGGCTTT 10 182 0 AAAGAGCCCTTTAAGGCTCTTT 11 0 1 ATAGCAACTAAAAAAGAGCCTTAAAGGGCTCT 11 12 0 TGTGAAATTTAGAAAGCGTTTTTACCGTGATC 15 30 0 AAATCTAAAAAAAACGCCGTTT 16 0 0 TAGGAATTTGAAAAAGCTTGTTTGTTAAGGTT 16 36 1 TATGATGATGAAAAAGCGCGATTCATTAAACT 18 11 0 GAAGCGGGAGAAAAAGCCTTTGCTTCTGGTTT 19 100 0 CACCTGGTGAAGAAACCCAATTTTTGTCGAAA 20 192 1 ******** ** MAP Score: 15.4199 Motif 4 CGTTTACTCTCCCTTTTTCAGGGAGAGTT 17 8 1 TTTAATGAATCGCGCTTTTTCATCATCATAA 18 13 1 TGCCCCCTTCCCCCTATTGCAGA 15 118 0 CATCAGACCTCTGCCTTTCCCAACGATCTAA 5 117 1 AACCCGCACCCTTCCCTTTTTCTTTCT 20 283 0 AAATATCACCCTTGTCCCCAAATTCAC 7 145 0 GACTTCTTCTCCCTTCATCGCATTAACGC 4 50 0 GCTGGCTGTCCCCGCTGTTAAA 7 1 1 CTCTCCCAGTCTCGCTGTCTTTTTGTCCTAG 5 210 0 TTTCTTTATGCGGCCTTTCTTGTGTATTTAA 14 50 1 CATGACATCACTCCCTTTTCGC 14 1 0 TATATAGATACCGGCTTTACCGGTCAAGCTT 0 190 0 TGTGTATTTAATCGCTGTCCCAATCTTCGGC 14 70 1 GTTTTCCCCCTGCTTTCCTTCTGTTA 13 64 0 GCTGTATCCTCCCGCTGTTTGCGAGCATTTG 7 34 0 GGCTTTTTCTCCCGCTTCTGCGCTCCGAGCA 19 114 1 ACCAGAAGCAAAGGCTTTTTCTCCCGCTTCT 19 102 1 TTAAAACCTTCCGCCTTTATTGTTTTTCCAG 0 68 0 TAAAGCGTCAATCCCTTGCTCGTCAAGGATT 10 57 0 GGAAGGTTTTAACGCTTTTTTGCGTCGAAGT 0 87 1 CCTTAACAAACAAGCTTTTTCAAATTCCTAT 16 35 0 ACTGCCATTCAACCCTTTATTCACTTTAATG 5 83 0 CGCCATTCCTCCCTTCCTATTTATCATAC 0 8 1 * ********* MAP Score: 11.225 Motif 5 TACACAAGAGTGTGTATAAAGCAATTAGAA 2 32 1 TTAGAGAAAATGTGGAGAATATGAGAAAAC 3 25 1 TTTACATTAAAGTGAATAAAGGGTTGAATG 5 79 1 ATCAATCCGGGGCGGAGAAATTTCTTAATA 6 20 0 ATAATGATGGGGTGGAGAAT 6 105 1 GGGGCTTTTCTGTGAAGAAATAAAGTGTAT 9 44 0 TGTATTCATTGGTGGAGGACATAGAAC 9 170 1 TGTCCAACAAAGTGAAGAATTTCTGTATGT 10 123 0 CAGACTGAACTGTGAAGAAATGATAATAAA 10 243 1 CACTTTTTGGTGTGGATAACAGAACGATTG 20 83 0 CACACCAAAAAGTGGATAACTTGTGAGTAT 20 99 1 CTTCACCAGGTGTGGATAAATTTACACACA 20 174 0 ATCCACACCTGGTGAAGAAACCCAATTTTT 20 187 1 ********** MAP Score: 10.9369 Motif 6 GATAAATAGGAAGGGAGGAATGGCG 0 2 0 AGTGTGTATAAAGCAATTAGAATGAGTTGAGTT 2 40 1 TAATGCGATGAAGGGAGAAGAAGTC 4 54 1 GTTTACATTAAAGTGAATAAAGGGTTGAATGGC 5 78 1 TACATAGATTAAGAAATAAATGTGAATTTGGGG 7 124 1 GGATGAAAAAAGGAAAAAAAGGAATATTCGTT 10 9 1 AAATGAGAGCAAGTAAGAGAAAGACAATTAAAC 10 188 0 TACGACAAAAAAGTGAACGGAGGGGTTTCAA 12 182 1 GATAAAATGAAAGTAACAGAAGGAAAGCAGGGG 13 51 1 GCGAAAAGGGAGTGATGTCATGGCAGAG 14 5 1 AACCTTCAAAAAGTAAGAAATGTGAAATGAACG 15 63 1 TGTACCATAGAAGGGATAAAAGGAAAAAAGAAC 19 38 1 ATCATTTTGAAAGAAAGAAAAAGGGAAGGGTGC 20 272 1 *** ** ***** MAP Score: 10.7391 Motif 7 AATACTTCGACGCAAAAAAGCGTTAAAACCTT 0 89 0 AATGTCATTCAGGCAAAAATGGCTACAACAAA 0 149 1 ATCATTATAGCATAAAAAAAAGAATTGGCTGT 7 60 0 GGATGAAAAAAGGAAAAAAAGGAATATTCGTT 10 10 1 AAACCTGTCTCAGAAAAAAATGAGAGCAAGTA 10 206 0 ATATGAATAGCAACTAAAAAAGAGCCTTAAAG 11 18 0 TAGAAATTTTCAAAAAAAAGTTGTACGTGTAT 11 52 1 GCTATTCATACGACAAAAAAGTGAACGGAGGG 12 174 1 TATGCCAAATCTAAAAAAAACGCCGTTT 16 6 0 TGGAAGCAAACATAAAAAAACTCTCCCTGAAA 17 25 0 GTACAAACTCCTTCAAAACAGGATATGAAATA 19 171 1 TAGTATAAGCCACCAAAAAGCTCTCGTCCAAT 19 205 0 CTCTCATTGCCGGAAAAACTGGCTACCCTATA 19 235 0 CTGTTATCCACACCAAAAAGTGGATAACTTGT 20 91 1 AAAAAAATTTCGACAAAAATTGGGTTTCTTCA 20 199 0 AGAAAAACTGAGCAAAAAAATTTCGACAAAAA 20 212 0 AAATGATTGTCGAAAAAAATCGAACTTGCGCC 20 247 0 ** ******* * MAP Score: 9.73475 Motif 8 ATATAACGCCGCCGGTTTTTGTTCTGTTTTGTA 5 42 1 TCCTCAGAGTGCAGTTTTTCTTAAAAAGCCGTT 10 158 1 CCCTTAGAAAGGGGCTTTTCTGTGAAGAAATAA 9 51 0 CAGCTGAAAAGCTGATTTTTTTATTGAAACAAT 5 151 1 CCCTTTCTAAGGGGCTTTTCATATTTCAAGAGC 9 71 1 AGCCTTTGCTTCTGGTTTTCCTTTCTAAGAAGC 19 85 0 ATTTTTTTGCTCAGTTTTTCTTTAGGCGCAAGT 20 223 1 CGCTCAGTCAGCGGGTGTTTCTTATGGAACAAG 12 36 0 CGCTGACTGAGCGGGTGTTTTTTTAATAGCCAA 12 56 1 AAACGGCGTTTTTTTTAGATTTGGCAT 16 4 1 GCCCTTTAAGGCTCTTTTTTAGTTGCTATTCAT 11 15 1 TCGATGGAAGGGTCTTTTTCTGTATGATAAATA 0 27 0 TTAATGAATCGCGCTTTTTCATCATCATAAGAT 18 14 1 CCCGCACCCTTCCCTTTTTCTTTCTTTCAAAAT 20 275 0 CTAGAGGCCGGGCGTTCTTTTTTCCTTTTATCC 19 51 0 AGAGCTGAGCGGAAATTTTCTTTATGCGGCCTT 14 34 1 TCCCAGTCTCGCTGTCTTTTTGTCCTAGTATAG 5 205 0 CCTTTTTCAGGGAGAGTTTTTTTATGTTTGCTT 17 21 1 TCTTACTTGCTCTCATTTTTTTCTGAGACAGGT 10 203 1 ACCCCTCCGTTCACTTTTTTGTCGTATGAATAG 12 175 0 ** * ***** ** MAP Score: 8.99722 Motif 9 TATGATAAATAGGAAGGGAGGAATGGCG 0 2 0 GCATTAGAGAAAATGTGGAGAATATGAGAAAACTGT 3 22 1 CGTTAATGCGATGAAGGGAGAAGAAGTC 4 51 1 AGGTTTACATTAAAGTGAATAAAGGGTTGAATGGCA 5 76 1 GGATGAAAAAAGGAAAAAAAGGAATATTCGT 10 5 1 CATACGACAAAAAAGTGAACGGAGGGGTTTCAA 12 180 1 AATGAAAGTAACAGAAGGAAAGCAGGGGGAAAAC 13 56 1 ACTCTCCCTGAAAAAGGGAGAGTAAACG 17 2 0 TAGTGTACCATAGAAGGGATAAAAGGAAAAAAGAAC 19 35 1 TAGTGCTTCTTAGAAAGGAAAACCAGAAGCAAAGGC 19 81 1 ATCCACACCAAAAAGTGGATAACTTGTGAGTATCGT 20 96 1 GTGATGTAATAAGAGTGGATAGTGTGTGTAAATTTA 20 152 1 GAAAGAAAGAAAAAGGGAAGGGTGCGGGTT 20 280 1 * *** *** ** * MAP Score: 2.02977 Motif 10 AGACCCTTCCATCGAAGAGTCAGCTGGAAAAACAATAAAG 0 45 1 TTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACT 4 33 0 TTTTATTGAAACAATACAATTTCCTGATAAAACAAGCTAT 5 169 1 TTATTTCTTCACAGAAAAGCCCCTTTCTAAGGGGCTTTTC 9 51 1 TTTCGATTCTAGCACATATGCCCCGCTAAAAGCAAAGTGA 9 125 0 CTTGACGAGCAAGGGATTGACGCTTTAAAATGCTTGATAT 10 61 1 CATTCCTCAGAGTGCAGTTTTTCTTAAAAAGCCGTTTAAT 10 155 1 AGGATATGTTAATATAAATTCCCTTCCAAATTCCAGTTAC 12 104 1 AGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGA 13 3 0 CTGGCGGATCACGGTAAAAACGCTTTCTAAATTTCACATA 15 24 1 TTTCAACCTTAACAAACAAGCTTTTTCAAATTCCTATGCC 16 32 0 AGCAAACATAAAAAAACTCTCCCTGAAAAAGGGAGAGTAA 17 13 0 TTTTGAATATTCTGTACAAACTCCTTCAAAACAGGATATG 19 158 1 TTTTCCGGCAATGAGAGTGATACTTGAAAATGGTGAGATG 19 250 1 GTCGAAAAAAATCGAACTTGCGCCTAAAGAAAAACTGAGC 20 231 0 * * * * *** *** MAP Score: 0.663465 Motif 11 AGTCTTACTTAAAAGCGTTAATGCGATGAAG 4 36 1 GTTAATGCGATGAAGGGAGAAGAAGTC 4 52 1 TGCTTTTAACAGCGGGGACAGCCAGC 7 5 0 AATGCTCGCAAACAGCGGGAGGATACAGCCA 7 36 1 CCCCGCTAAAAGCAAAGTGAATGCCCTGTCA 9 114 0 GGATGAAAAAAGGAAAAAAAGGAATA 10 5 1 ATGTTTGTCCAACAAAGTGAAGAATTTCTGT 10 127 0 TGTATAATAAAACAAGGTAAAGATTGAAAGG 11 79 1 TTCATACGACAAAAAAGTGAACGGAGGGGTT 12 178 1 ACAGAAGGAAAGCAGGGGGAAAAC 13 66 1 GCGAAAAGGGAGTGATGTCATGGC 14 3 1 GAATAAAGATAAAAAGGGCAGGCCAAACCG 14 115 1 TCAAAAAGTAAGAAATGTGAAATGAACGTGC 15 68 1 ATGGATCTGCAATAGGGGGAAGGGGGCA 15 113 1 GTTAAGGTTGAAAAAAGTAAGATAATACTTG 16 59 1 CTCTCCCTGAAAAAGGGAGAGTAAACG 17 6 0 ATGATGATGAAAAAGCGCGATTCATTAAACT 18 11 0 AGTGTACCATAGAAGGGATAAAAGGAAAAAA 19 36 1 AGTGCTTCTTAGAAAGGAAAACCAGAAGCAA 19 82 1 CTCGGAGCGCAGAAGCGGGAGAAAAAGCCTT 19 112 0 GTGATACTTGAAAATGGTGAGATG 19 266 1 TGAAAGAAAGAAAAAGGGAAGGGTGCGGGTT 20 279 1 ******* *** MAP Score: 0.631412