AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_fusions028_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944241573 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 lmrB 39 drug-export protein #1 lmrA 216 transcriptional regulator #2 mdr 112 multidrug-efflux transporter #3 yfiU 110 similar to multidrug-efflux transporter #4 yfiV 171 similar to transcriptional regulator (MarR family) #5 prkA 300 serine protein kinase #6 yhbH 179 alternate gene name: yzdC; similar to hypothetical proteins #7 yhbI 159 similar to transcriptional regulator (MarR family) #8 yhbJ 35 yhbJ #9 yhcA 40 similar to multidrug resistance protein #10 ylbK 180 similar to hypothetical proteins Motif 1 TACTACATGCAGTTGATAGAGAGGGGAA 0 21 1 TTTGATTGCAATTCAGTAAGGTGGGAATGTT 1 195 1 GATAAACTCGATTTTATAGGGAGGACTGTCAG 2 8 0 GAACTTACATAGAAAAGTAAGAGGAGGTAGAACA 2 87 1 AAAATCGAGTAATATGGTAAGAGGAGTGAATGAT 4 133 1 TGGTAAGAGGAGTGAATGATGAGGAAGTGATGAA 4 147 1 GACAGCACGGAAAAATTGAAGAGGGGGAGAGACG 5 100 0 ATAGTGTATCAAACATGATAGAGGAGGTCCTT 5 278 1 CACGACCACAAATGGTTAAGGAGGGGAATTC 6 158 1 TAAAATATTAATAAATGAAAGAAGATTTGTCAAA 7 97 0 GTGAACTATTATTGAGGAATGAGGTGAAAAGGAG 7 135 1 AAGCTGGTGAAAATATGTGAGAAGTTT 8 3 0 ATCATGATAAAATAATGTATGATGTAAAACGGCC 10 50 1 ATATTAGTACAAAGAATCAAGAGGACAGGTACTG 10 87 0 TATACAGGGAATTCAGGCAGGAGGTTAACGCT 10 158 1 * * * * ****** MAP Score: 14.7191 Motif 2 CTCTCAGTATTTTTTGTTGTCATATCCTTCTTTTTTTG 1 88 1 TCCTTCTTTTTTTGTCTTTTCATACAATGAATTTTTCT 1 112 1 ATACAATGAATTTTTCTTGACAATTGATGATTGAATCA 1 133 1 GTCACTATATTTTTGATTGCAATTCAGTAAGGTGGGAA 1 184 1 AGCAGGCTTTTTTTATTTGACATTTAGTTCATTTAAAA 3 41 1 ACTCCTTTTAGTTCACTTGAAATATATTATTCATTTTA 3 74 0 ATCATGATGGGTGTCATTGTCACTTTTTTAGTATCAAT 5 50 0 AATAGGGCGGGTTATTTTGTCCCATTTTCTAAATAGTT 6 27 1 ACATATGCACGTTTAATTGACAAACTATTTAGAAAATG 6 49 0 AAAAGAAATTTTTCCTTTGACAAATCTTCTTTCATTTA 7 82 1 TTATTAATATTTTATCTTGTGAACTATTATTGAGGAAT 7 117 1 *** *** ** * * MAP Score: 12.8292 Motif 3 CTATTTCTCTCCTTACATCCATATGATGATTAAT 1 4 1 CAGTATTTTTTGTTGTCATATCCTTCTTTTTTTGTCTTTT 1 92 1 TCTTTTTTTGTCTTTTCATACAATGAATTTTTCTTGACAA 1 116 1 ACAATCAAACTATTATCATGATATCAGAACTTACATAGAA 2 61 1 TCTAGTTCGATCCTCTCCCCCAATAATCTCCAACTCATTA 4 28 1 TTATTCTTTTCCAGGCTTGCTTTCGTATCCTGCG 5 4 1 TCATGATGATTGTTTTCACCGTCTCTCCCCCTCTTCAATT 5 81 1 GATGATTCTGTATTTTTCTTTATTATGAACGGTCGCAGTC 5 142 1 GGGCGGGTTATTTTGTCCCATTTTCTAAATAGTTTGTCAA 6 31 1 TTTCAGGGCTTTTTTTTATTTAATAAAAGCAAGAAAACGC 7 21 1 AAAAATTTCTTTTTCTCCCGTATTTTTTTCGCAAGCGTTT 7 55 0 TTGACAAATCTTCTTTCATTTATTAATATTTTATCTTGTG 7 98 1 ACTTCTCACATATTTTCACCAGCTTTCCGCAAA 8 12 1 TAAGACAACCTCCTTTCATGGTTTGATGACTGATCTGTT 9 9 0 TCATACATTATTTTATCATGATATACATGTCATTGGGCAT 10 32 0 * ** **** ** * MAP Score: 10.5936 Motif 4 TTCTCTCCTTACATCCATATGATGATTAATCATTGTACATTT 1 14 1 TTGACAATTGATGATTGAATCAAGATAATAGACCAGTCACTA 1 149 1 TTCAACAATCAAACTATTATCATGATATCAGAACTTACATAG 2 57 1 GAACTTACATAGAAAAGTAAGAGGAGGTAGAACAA 2 87 1 ATATGGTAAGAGGAGTGAATGATGAGGAAGTGATGAA 4 144 1 TAAGAAACCAAAGCATGTATCACGAGATGGCGGCATAGATTG 5 216 1 AAACGTGCATATGTGCATATGATGAATATAAATCTTTTCAAA 6 73 1 AAGCCGGAATACGTATGTATCACGACCACAAATGGTTAAGGA 6 138 1 TAAAATATTAATAAATGAAAGAAGATTTGTCAAAGGAAAAAT 7 89 0 GTGAACTATTATTGAGGAATGAGGTGAAAAGGAG 7 135 1 ATGCCCAATGACATGTATATCATGATAAAATAATGTATGATG 10 32 1 ATCATGATAAAATAATGTATGATGTAAAACGGCCAAGCAGTA 10 50 1 CGTATATTAGTACAAAGAATCAAGAGGACAGGTACTGCTTGG 10 82 0 * ****** ** * MAP Score: 10.0267 Motif 5 GCTTTTCTCTCAGTATTTTTTGTTGTCATAT 1 82 1 GTTGTCATATCCTTCTTTTTTTGTCTTTTCA 1 103 1 ACTGCGGGAGCAGGCTTTTTTTATTTGACAT 3 33 1 TATACACTACCGTTATTTTTCGGACAAAGTC 4 66 1 CTGGATGATTCTGTATTTTTCTTTATTATGA 5 139 1 GTATGAGTATCTTTATTTTTAAGAAACCAAA 5 197 1 AGCCCATTTCAGGGCTTTTTTTTATTTAATA 7 15 1 CAAGCGTTTTCTTGCTTTTATTAAATAAAAA 7 33 0 TCTTTTTCTCCCGTATTTTTTTCGCAAGCGT 7 57 0 CAAAGGAAAAATTTCTTTTTCTCCCGTATTT 7 70 0 TTACATCATACATTATTTTATCATGATATAC 10 46 0 TACCTGTCCTCTTGATTCTTTGTACTAATAT 10 90 1 * ********* MAP Score: 9.31049 Motif 6 CTATTTCTCTCCTTACATCCATATGAT 1 1 1 ATCATTGTACATTTTATCTATTCAGTCAAAAGATCA 1 42 1 TATCCTTCTTTTTTTGTCTTTTCATACAATGAATTT 1 110 1 TCATACAATGAATTTTTCTTGACAATTGATGATTGA 1 131 1 TATAAAATCGAGTTTATCTGGATAATCGAGATATTC 2 24 1 CGCATGCGGGACTTTGTCCGAAAAATAACGGTAGTG 4 70 0 CCCCCTCTTCAATTTTTCCGTGCTGTCCGAGTCTGG 5 107 1 GATGATTCTGTATTTTTCTTTATTATGAACGGTCGC 5 142 1 AGGGCGGGTTATTTTGTCCCATTTTCTAAATAGTTT 6 30 1 TTTTCTAAATAGTTTGTCAATTAAACGTGCATATGT 6 51 1 ATGAATATAAATCTTTTCAAAAGACTTGTTTCATAA 6 94 1 GAAAAATTTCTTTTTCTCCCGTATTTTTTTCGCAAG 7 60 0 GAGAAAAAGAAATTTTTCCTTTGACAAATCTTCTTT 7 78 1 ATTTATTAATATTTTATCTTGTGAACTATTATTGAG 7 115 1 CTCCTTTTCACCTCATTCCTCAATAAT 7 142 0 AAACTTCTCACATATTTTCACCAGCTT 8 1 1 ATCATACATTATTTTATCATGATATACATGTCATTG 10 37 0 * *** *** * * * MAP Score: 6.63924 Motif 7 CTATTTCTCTCCTTACATCCATATG 1 5 1 TTATCTTGATTCAATCATCAATTGTCAAGA 1 147 0 CTGACAGTCCTCCCTATAAAATC 2 3 1 ATCAGTAAGTCTGTCATCCGCAAACTGCG 3 9 1 CTAGTTCGATCCTCTCCCCCAATAATCTCC 4 29 1 TACTCGATTTTCACTCCTGAAAGAAAGTGA 4 114 0 TCCTCATCATTCACTCCTCTTACCATATTA 4 142 0 GACGGTGAAAACAATCATCATGATGGGTGT 5 74 0 GTTTTCACCGTCTCTCCCCCTCTTCAATTT 5 92 1 CCTTTTCACCTCATTCCTCAATAATAGTTC 7 137 0 AACAGATCAGTCATCAAACCATGAAA 9 6 1 CCAAGCAGTACCTGTCCTCTTGATTCTTTG 10 82 1 ********** MAP Score: 6.02531 Motif 8 ACATTTTATCTATTCAGTCAAAAGATCAGT 1 50 1 TTCAGTCAAAAGATCAGTCAGCTTTTCTCT 1 62 1 TCAAGATAATAGACCAGTCACTATATTTTT 1 168 1 TTTTATAGGGAGGACTGTCAG 2 1 0 ATCAGTAAGTCTGTCATCCGCAAACT 3 6 1 ATTTTCTAAATAGTTTGTCAATTAAACGTG 6 50 1 ACTTGTTTCATAATCTGGCACAAGCCGGAA 6 117 1 AAATGAAAGAAGATTTGTCAAAGGAAAAAT 7 89 0 AACAGATCAGTCATCAAACCATG 9 3 1 GTATACAGGGAATTCAGGCAGGAGGTTAAC 10 157 1 ********** MAP Score: 5.08735 Motif 9 AGCTTTTCTCTCAGTATTTTTTGTTGTCATATCCT 1 81 1 TGTTGTCATATCCTTCTTTTTTTGTCTTTTCATAC 1 102 1 ATCGAGTTTATCTGGATAATCGAGATATTCAACAA 2 30 1 AGTTCTGATATCATGATAATAGTTTGATTGTTGAA 2 57 0 TTATACACTACCGTTATTTTTCGGACAAAGTCCCG 4 65 1 ATGACACCCATCATGATGATTGTTTTCACCGTCTC 5 71 1 GCTGTCCGAGTCTGGATGATTCTGTATTTTTCTTT 5 128 1 TGTATGAGTATCTTTATTTTTAAGAAACCAAAGCA 5 196 1 TGCCGCCATCTCGTGATACATGCTTTGGTTTCTTA 5 216 0 CCATTTGTGGTCGTGATACATACGTATTCCGGCTT 6 138 0 CATTATTTTATCATGATATACATGTCATTGGGCAT 10 32 0 GTACCTGTCCTCTTGATTCTTTGTACTAATATACG 10 89 1 ** **** ** ** MAP Score: 2.56384