AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_fusions003_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944240292 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 natA 143 Na+ ABC transporter (ATP-binding protein) #1 yckB 300 similar to amino acid ABC transporter (binding protein) #2 yckK 114 similar to glutamine ABC transporter (glutamine-binding protein) #3 yclA 89 similar to transcriptional regulator (LysR family) #4 yfmD 71 similar to ferrichrome ABC transporter (permease) #5 yfmC 108 similar to ferrichrome ABC transporter (binding protein) #6 yfmB 40 yfmB #7 ykoF 300 ykoF #8 yqiY 80 similar to amino acid ABC transporter (permease) #9 yqiX 268 similar to amino acid ABC transporter (binding protein) #10 yqiW 162 similar to hypothetical proteins from B. subtilis #11 yqgH 68 alternate gene name: yzmC; similar to phosphate ABC transporter (permease) #12 yqgG 153 alternate gene name: yzmB; similar to phosphate ABC transporter (binding protein) #13 pbpA 113 penicillin-binding protein 2A #14 yqgE 33 similar to hypothetical proteins #15 sodA 178 superoxide dismutase #16 yqgC 109 yqgC #17 glnQ 155 glutamine ABC transporter (ATP-binding protein) #18 glnH 21 glutamine ABC transporter (glutamine-binding protein) #19 glnM 60 glutamine ABC transporter (integral membrane protein) #20 ytmM 29 similar to amino acid ABC transporter (permease) #21 ytmL 21 similar to amino acid ABC transporter (permease) #22 ytmI 152 similar to hypothetical proteins from B. subtilis #23 ytlA 150 ytlA #24 yufN 300 similar to ABC transporter (lipoprotein) #25 yufO 75 similar to ABC transporter (ATP-binding protein) #26 yusV 217 similar to iron(III) dicitrate transport permease #27 yusW 109 yusW #28 yusY 133 yusY #29 opuCA 263 glycine betaine/carnitine/choline ABC transporter (ATP-binding protein) #30 rbsR 300 transcriptional regulator (LacI family) #31 yxeN 22 similar to amino acid ABC transporter (permease) #32 yxeM 24 similar to amino acid ABC transporter (binding protein) #33 yxeK 185 similar to monooxygenase #34 yxeI 154 similar to penicillin amidase #35 yxeH 39 similar to hypothetical proteins #36 yxeF 87 yxeF #37 yxdL 143 similar to ABC transporter (ATP-binding protein) #38 yxdJ 108 similar to two-component response regulator [YxdK] #39 iolI 85 alternate gene name: yxdH; myo-inositol catabolism #40 iolG 22 myo-inositol 2-dehydrogenase #41 iolD 203 alternate gene name: yxdD; myo-inositol catabolism #42 iolC 23 alternate gene name: yxdC; myo-inositol catabolism #43 iolB 74 alternate gene name: yxdB; myo-inositol catabolism #44 iolA 300 methylmalonate-semialdehyde dehydrogenase Motif 1 AAAGCATATAGAAAAAAGGAGGCGGCTGTT 23 8 0 AACTTGATGCGAAATAAGGAGGTTGTCTAT 23 130 1 CATGCGTGTGAATACAAGGAAGACATGAAGAA 16 59 1 TACTAAATCTGAAAAAAGGAAGAATGAC 5 90 1 TTTAATGATGAAAAACAGGAGGGAGCACA 22 7 0 ATTTTACCAAAAAAACAGGAGGTCGGAGAA 7 280 1 CAAGAATAAAACCATAAGGAGGATTTTC 37 125 1 CGCATTCGCCCAAAAAAGGAGGAAAGA 36 70 1 TCTTAATAAAAAGAGGAGTGCGGGGA 11 4 1 TCATTCTGCCAATAGAAAGAGGAGGGCTTCTC 43 51 1 ACTAGAAATAAAGATAAGGGAGATTGTGAC 0 123 1 CCAACAGAAGGAGTGGCTGTCA 40 2 1 CTAAAAACATGATAAAAGGAGTATCGCC 33 167 1 AGCTATTTTCAACACCAGGAAGAAATATGATA 29 50 0 GATAGCATTGAACATAAGGGGTTGCAATATGT 1 244 0 AACGGTTACATAAACAAGGAGGAGCTGTT 30 281 1 GAATCGCAGGGATAAGGAGGTCGAGCCCTT 25 8 1 TTTTTCCTGTAAGAAAAGGAGACAAAGGCT 8 60 1 CTTTATCCGTACGAGCAGGAGGTATGTCTA 6 20 1 CCTAAAAGGTATGATAAGGAGGCGCTTTCTT 3 68 1 AAGAGGTGATGAAAAAAGGAATTGTCCAAGGA 1 138 0 AAAGGCGGGGAAGAGAAGGATGCGGAAGGCGT 24 83 0 AACCAGAAGGAAAATAAAGGAGCAGTTGTAT 10 9 0 CTTTTATTTTGAAATAAAGGAGCGGTCAATCA 25 53 1 AAATAAAAGAAAAACAAGGGATAAGGGCTCGA 25 30 0 TTACTGCTTACAGAAAAAGGGGATTATATAAC 10 38 0 TTTTTTTGCCAAAAAGGGGTTATCTGTAG 13 7 1 ATAATAGAACGAAAGAAGGAAAGGGGTTTTGT 28 108 1 TGACTAAAGAAACATAAAGAATAATTCCTTGT 17 43 0 AAGACTTTGTCAAAAAAAGAGTGAAAACCTTA 30 158 1 ** * ******* MAP Score: 33.2098 Motif 2 AAAAAAATGATTTCGTTGTTTACAAAATGATTCTTA 7 29 1 AACATCACCTTTTCTATTTACAGAAAGAAAAGACAC 13 87 0 GCAGCCCGGGTTTTTTTGTGCATAAATTTCCAAGGA 9 34 1 ATGTGGGCGTTTTTTTTATACAAAAAAACGCACTGA 12 26 1 ATATGCAGTTTTTTATTTTACCAAAAAAACAGGAGG 7 266 1 AAACGCAGCTTTCTTTACTAAAAAAATATTGACAT 5 9 1 TTCTATATGCTTTCCTTACTCCAAAATTACATCCGG 23 27 1 CGAAGAGTTCTTTTTATGTCGTGAAATGGGATAGAA 0 43 0 ATTTTTTCACTTTTAATTTTCAGAAAAGTTTGATCA 17 91 1 GTAAGCTAATTTTTTATTTCAATAAAATCAACCAGA 2 73 1 GCTCCTTTATTTTCCTTCTGGTTATATAATCCCCTT 10 18 1 TGAATGAGGATTTCATTCTCTGGATATACCTAAAAT 27 56 1 TCGATTTGACTTTCGTTATGCTGATAAAACCAATTC 34 79 1 TCGTGAGCTTTTTCATTGATTACAAAGCATTCTTTT 15 82 1 GTTAAGCGAATTTTCTTACCCACAAACGATCCCACC 41 29 0 CTTTGTCTCCTTTTCTTACAGGAAAAAAGTTTCCTA 8 51 0 CCCTAATACGTTTCCATGACCGAAAATCGTGAAGAT 41 144 0 GATATGGACGTTTCCTTGCTATCATAAGAACAGATG 10 115 1 AGCGATTTAATTTTTATCTAGTAATATCAGAAGAGA 9 111 1 CAAAGGTACATTTTGATTTATTCATATTAAACGACT 33 96 1 TAATAGATATTTTTCATATGGATATATCAGGAGTAT 3 17 0 AAGTATTTGGTTTTCATAAGACAAAATCTT 2 4 0 ACTTCAGTAATTTTAATGATGAAAAACAGGAGGGAG 22 14 0 GCAGGTTTCCTTTAAATTTTCTGAAAAGTATAATCC 29 224 0 **** ** * *** MAP Score: 21.8609 Motif 3 AAAAAACCTTTAAAATGAAAACTGGCACTCTTACT 13 49 1 TAAAAGCATGTATATAGAAAACGTGCAATACATAG 26 160 1 TTTCTTTCTGTAAATAGAAAAGGTGATGTT 13 93 1 AAGGAAAGCATATAGAAAAAAGGAGGCGGCTGTT 23 9 0 ATATCTTGAATAAACGAAAAATCGGATTGGCG 24 278 1 TATTTCAAAATAAAAGAAAAACAAGGGATAAGGGC 25 34 0 ATTATGATGTTAAAATAAAAAATTGTATACGGAAA 7 71 1 GTTTTTTTGGTAAAATAAAAAACTGCATATCCTAA 7 261 0 CTCCCGTCCCTATATGAAAAAAATGATTTCGTTGT 7 13 1 TCGAATTGTGTATACAAAAAGCATGGGTGGGTGTT 1 189 0 GTAATGACTATATACGAAAAGCTGGATTAGTTGGA 0 90 0 GATATTAATCTGAATTGAAAAGGGGACTGATCAA 34 130 1 TGCGTTTTTTTGTATAAAAAAAACGCCCACATCAT 12 23 0 AGGGGTTATCTGTAGAAAAAAGTCGAAAAAACCTT 13 24 1 CTTCATTCAATGTAACAAAAGAATGCTTTGTAATC 15 99 0 TGTTCTATAATAGAACGAAAGAAGGAAAGGGGTTT 28 102 1 TACATCCATGTAGATGGAAAGGAAGAGCCTTTTGT 41 102 1 TTGAACTTTGTAAAATAAAAAGTTTACAATGTGTT 29 179 0 AAAAGATTAATATAATAAAAATAATGAAAAAATGT 44 38 1 TAAAAAATTGTATACGGAAAGCACTAGGGGTGCTG 7 86 1 TCTTTTCGCTTGAATAGAAAAAATTAATCTTAACT 33 42 1 **** ***** * MAP Score: 20.454 Motif 4 CAAGGAATTATTCTTTATGTTTCTTTAGTCAGTCA 17 44 1 ACCCCTTTCCTTCTTTCGTTCTATTATAGAACAAT 28 100 0 ACAATTAGATTTCTTTTGATATTTTTATTGCTAAC 30 215 1 AAAGGCTGGATCTTTTCGTTTTATTTGATGTAATG 34 28 1 CGAGCCCTTATCCCTTGTTTTTCTTTTATTTTGAA 25 31 1 GTCACAATCTCCCTTATCTTTATTTCTAGTAATG 0 119 0 TCCGCAGGTTTCCTTTAAATTTTCTGAAAAGTATA 29 228 0 AAACACTACATTTTTTCATTATTTTTATTATATTA 44 45 0 CCGCCATTTATTTTTTTGGTGTTTTTGAAAGCGTT 44 180 1 GGCGATACTCCTTTTATCATGTTTTTAGGCTGA 33 162 0 ATACAACTGCTCCTTTATTTTCCTTCTGGTTATAT 10 10 1 AAAAAAGTTATCCTTTAGATTTGTAAGCTAATTTT 2 51 1 GGCCTTCTCTTACTTCTCTTACTTGATTAA 44 5 1 TTACAAAGCATTCTTTTGTTACATTGAATGAAGAA 15 101 1 TTTTTGGTCATTTCTTGGTTATATTCTAATCGCAT 44 100 0 CCGTATTCATTACTTTTGGTGTATTTGAATATTTA 9 231 0 AGCCGCCTCCTTTTTTCTATATGCTTTCCTTACTC 23 13 1 TCGCGAAGAGTTCTTTTTATGTCGTGAAATGGGAT 0 47 0 CGCCGTGCACTTTTTTTGGCCTCTTCGTTTACTGC 10 63 0 ATTTTAAAGGTTTTTTCGACTTTTTTCTACAGATA 13 30 0 TACTTGAGTGTCTTTTCTTTCTGTAAATAGAAAAG 13 80 1 TGTTTTACACTCCTATGAATGTGTTAAGAGGAGAA 11 43 0 AAAAGGCTCTTCCTTTCCATCTACATGGATGTACT 41 100 0 ****** * * ** MAP Score: 10.4796 Motif 5 TGACCGAATGGTGTATTTTTTTGTGCGCTTAAT 7 206 1 CTTTTTCGTTGAGCCTTTTTATTGAATAGGAAA 8 25 1 AAAGCAGCCCGGGTTTTTTTGTGCATAAATTTC 9 31 1 TTGCTTCGCCGTGCACTTTTTTTGGCCTCTTCG 10 71 0 CACATGATGTGGGCGTTTTTTTTATACAAAAAA 12 20 1 TTGTAAATCAGTGCGTTTTTTTGTATAAAAAAA 12 36 0 TCTTACTTGAGTGTCTTTTCTTTCTGTAAATAG 13 77 1 GCCAAATCGTGAGCTTTTTCATTGATTACAAAG 15 76 1 TCTATTACAGGCGTCATTTCGTGTTCAGGATAG 28 45 0 TTTATGTCAAGGGGATTTTTATGTTGAACGTCC 37 63 1 CGCCGAGATGGCGTGTTTTTTTGTGCGGTGTTG 38 23 1 * ** ***** ** MAP Score: 8.03625 Motif 6 ATCTTTATTCTATCCCATTTCACGACATAAA 0 36 1 GTCACAATCTCCCTTATCTTTATTTCTA 0 125 0 AAGAAAGCGCCTCCTTATCATACCTTTTA 3 70 0 AGCAAGGATTCCCCTCGCTTCTCATTTGTC 4 9 0 GTCATTCTTCCTTTTTTCAGATTTAG 5 92 0 TTCTCCGACCTCCTGTTTTTTTGGTAAAA 7 281 0 GATCCATTTCCCCCGTATTCATTACTTTT 9 249 0 GGTTATATAATCCCCTTTTTCTGTAAGCAGT 10 37 1 TGAAGACCTCTCCTTTTTCATCATCTGTT 10 143 0 TTGTCCCCGCACTCCTCTTTTTATTAAGA 11 8 0 TCTACAGATAACCCCTTTTTGGCAAAAAAA 13 9 0 TACTTGAGTGTCTTTTCTTTCTGTAAATAGA 13 80 1 AGCTTCCATCCTCCCATTTTACTCTGTCTT 16 89 0 ACAAGCTCCCCCATTTCTGTT 18 4 0 TCTTCTCCCCCCTCATCCGAAGAAATA 20 12 0 CACTGCTCCCTCTCTTTTTAC 21 2 0 TGTGCTCCCTCCTGTTTTTCATCATTAA 22 7 1 AACAGCCGCCTCCTTTTTTCTATATG 23 5 1 GCCCGGAACGCCTTCCGCATCCTTCTCTTCC 24 76 1 TCCTTCTCTTCCCCGCCTTTCGAAGGAAATA 24 95 1 CCCTTGTTTTTCTTTTATTTTGAAATAAAGG 25 42 1 AACCGCTCCTTTTTGCTGGCTTTTT 26 202 0 CCTAACCCTCCTATTAAACTGCTAC 28 4 1 ACTCCGGATACCTCCCACTTCCTCTGCATTC 29 82 0 TTGATTTTCCCGCCTTTTCTATTT 32 5 0 TCTTTCCTCCTTTTTTGGGCGAATGC 36 71 0 ACTGAACCACTCCCGTTTCTTACACTGCT 38 89 0 CTGCCGAACTCCCTTCATATCTAAAACGCAG 39 49 1 GCCAGACTCCCCCATCTGCGTTTTAG 39 69 0 AGAGAAGCCCTCCTCTTTCTATTGGCAGA 43 55 0 GGCCTTCTCTTACTTCTCTTACTTGA 44 5 1 TCTTATTGCCTCCTTCATTAGTAAACACA 44 281 0 ****** **** MAP Score: 7.63203 Motif 7 ATACCTAAAAGGTATGATAAGGAGGCGCTTT 3 65 1 TACCAGCGTGGGGAAGTGCAGGTTGACCGAA 7 183 1 TTTTTCCTGTAAGAAAAGGAGACAAAGGCT 8 60 1 AGAGATCACTGGAAAGATAAGCCTAAAGATA 9 142 1 ATGAATACGGGGGAAATGGATC 9 256 1 TCTTAATAAAAAGAGGAGTGCGGGGACA 11 7 1 CTATGAATGTGTTAAGAGGAGAAACGGTTGT 11 35 0 TAGTTTAGCTAGGAAGTGAAGATA 16 3 0 ATATAGGTGAGGTGAAAGCAG 17 0 0 CAACCATCCCGGGATGAGCAGGCGATGCTCA 19 10 1 TTATCAAATTGGGATGAGCATCGCCTGCTCA 19 24 0 CTTCGGATGAGGGGGGAGAAGA 20 17 1 GTAAAAAGAGAGGGAGCAGTG 21 8 1 TATATATTTTGTGAAGAGGAGTGACAAAA 22 133 1 AAAGCATATAGAAAAAAGGAGGCGGCTGTT 23 9 0 AACTTGATGCGAAATAAGGAGGTTGTCTAT 23 130 1 TCGAAAGGCGGGGAAGAGAAGGATGCGGAAG 24 87 0 CGCTTATTCAGGGAAGAATAGAACTGTCTCA 24 135 1 GAATCGCAGGGATAAGGAGGTCGAGCCCT 25 8 1 GCCATTTGAAGGGATGATCAGCT 29 2 0 TACATAAACAAGGAGGAGCTGTT 30 287 1 CTAAAAACATGATAAAAGGAGTATCGCC 33 167 1 AACGACATGAAGGAGATGCAGG 35 27 1 AAGTAAGAGAAGTAAGAGAAGGCC 44 3 0 ******** ** MAP Score: 1.49442