AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_operons045_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944246868 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 yhdP 60 similar to hemolysin #1 yhdQ 156 similar to transcriptional regulator (MerR family) #2 yhdT 76 similar to hemolysin #3 ylaK 154 similar to phosphate starvation inducible protein #4 comGB 52 probably part of the DNA transport machinery #5 comGA 300 late competence gene #6 yqfF 78 yqfF #7 yqfC 56 yqfC #8 yqfB 24 yqfB #9 yqfA 21 yqfA #10 yqeZ 130 yqeZ #11 rpsU 163 ribosomal protein S21 #12 yrkA 300 similar to hemolysin-like #13 yugS 27 similar to hypothetical proteins from B. subtilis #14 yugP 300 yugP Motif 1 AGATGAAAGGGGGTTCTTTTTGT 7 43 1 AGCTTCTCCTGGCTTCATTTTCTGAAAGAAC 14 113 1 TGATTACCTTTTCTTCTTTTTCTACAATATG 5 256 1 TGGTGACCATGTCTGCTTTTTTATTTATAGG 5 120 1 AAGTTCTTCCTGCTTCTCTTTTGATGAAAAA 3 107 0 TTTTTATTTTGCTTTCTTTTTTAAGCCTTAA 12 96 1 TTATTTTAATGAGTTTTCTTTCTCGTGTACA 14 238 0 TAGAAAGATGTCCTTTTCTTTGCCAT 10 5 0 TTTTCAGCAGGCCTGTTCTTTTTGCTGATTG 14 170 1 TCAACTAAGTGAGTTCACTTTTCCGTCATGA 11 48 0 CACAAGTTTATTGTTTTTTTTAGACCGGAAT 1 90 0 ATGTATCAAAGGTTTCATTTTTTTATGTATA 10 53 0 GGTGTATCCCTCCTTCCTTTTATAATAAGTG 10 105 0 TATAATAAGTGCCTTCTCTTCATACGTAACA 10 85 0 TCAGTTGAAAGTCTTTTTTCTTGCCAGAAAG 5 176 1 CGGCAGTTTCGCCTTTTATTTGTTTTCAGCA 14 148 1 ATGTTATATATACTGTTTTTTGTTTATTCAA 12 232 1 ATTCAGGTGTGTTTTTATTTTGCTTTCTTTT 12 85 1 TAAGAGAGATGTCTTTTTTTATACATAAAAA 10 34 1 TCTTTATAAAGATTTTCTTTTAAAATTT 12 7 0 CGCGGTGATTTTGTTTATTTTCGATTTGAAT 14 61 1 ACAGAAATGCGCTTTTTCTTCCGGCTTGGAG 14 210 0 * ********* MAP Score: 17.9747 Motif 2 TCACTCTAGCAATGAGAATGAAGGTAACAC 0 31 0 CCTCTCAACAAAGGATAAGGAGTCACCTCC 2 46 0 CCTTTGTTGAGAGGATAGGGTTAA 2 62 1 CTTCTCTTTTGATGAAAAAGGTGAATGCCT 3 96 0 TTTTTCATCAAAAGAGAAGCAGGAAGAACT 3 107 1 AAAACAGCATAATGAAAATGGAATCTAGCA 5 86 1 GGAAAATTATAATGACAGGGGTACATTCAG 5 150 1 TGTAGAAAAAGAAGAAAAGGTAATCAAACA 5 252 0 TATGCGTTGAAAGGAGAGGGAATCAAA 5 283 1 ATACACATGAGATGAAAGGGGGTTCTTTTT 7 34 1 ATGGCAAAGAAAAGGACATCTTTCT 10 5 1 TGTTACGTATGAAGAGAAGGCACTTATTAT 10 85 1 CTATATAATGAAAGAAAGGGGTTG 11 4 0 AAATTTTAAAAGAAAATCTTTATAAAGA 12 8 1 TGCTGAAAACAAATAAAAGGCGAAACTGCC 14 149 0 CAATCAGCAAAAAGAACAGGCCTGCTGAAA 14 171 0 CTCCAAGCCGGAAGAAAAAGCGCATTTCTG 14 210 1 ********** MAP Score: 17.8393 Motif 3 GAAAAATGATTATATCAGGAGGTGACTCCTTATC 2 29 1 CTTTGACCCTTATATCAGGAGGCTGAGAC 3 135 1 AACCATTTTATCTAACAGGAGGTGTTACCTTCAT 0 10 1 ATGTGTATGATTTGAAAGGAGGTTCTAACACT 7 8 0 AGTCGATTGGTGTATTCGGAGGGAGGGAAAGAGA 11 139 1 ATGGGCTTGATGTTTCAAGAGGAGGTTCTT 6 58 1 TTCAAATTTTTATATGCGGAAGGGACAG 1 4 0 TCTCTCTAAGAAGGGAGAACGCTG 8 2 1 CAATAAATATTTACATCGGAGGTGTACGCCTTAC 12 260 1 AGGCACTTATTATAAAAGGAAGGAGGGATACACC 10 102 1 CAAAAACATATATTTTAGCAGGCATTCACCTTTT 3 77 1 TAATGAAAGCATTTTAAGGAGGGAACCCGCAA 3 8 0 TCAAGCCAGGTTATTAAAGAGGCTCGGTGAA 4 31 1 AAAAGACATCTCTCTTAGAAAGATGTCCTTTTCT 10 17 0 CTGATTGAAGTAACATAGGAAGATAGAATTTTCA 1 34 0 AACCCTATCCTCTCAACAAAGGATAAGGAGTCAC 2 50 0 TTTTAAGGCTTAAAAAAGAAAGCAAAATAAAAAC 12 95 0 * * * ****** * MAP Score: 14.5152 Motif 4 AAGAACCTCCTCTTGAAACATCAA 6 64 0 AGTGTTAGAACCTCCTTTCAAATCATACA 7 6 1 ACAAAAAGAACCCCCTTTCATCTCATGTG 7 37 0 TTTTATAATAAGTGCCTTCTCTTCATACGTAAC 10 86 0 AAATGGTAAGGGGCCACCTCCTTAACG 13 5 0 ACTGGCCGGCAGTTTCGCCTTTTATTTGTTTTC 14 142 1 CAAAGGATAAGGAGTCACCTCCTGATATAATCA 2 35 0 CAGCGTTCTCCCTTCTTAGAGAGA 8 7 0 TCTTAGAAAGATGTCCTTTTCTTTGCCAT 10 6 0 TCCCTGTTTGATTACCTTTTCTTCTTTTTCTAC 5 248 1 TTGCGGGTTCCCTCCTTAAAATGCTTT 3 4 1 TTTGATTCCCTCTCCTTTCAACGCATA 5 283 0 ATGTATCAAAGGTTTCATTTTTTTATGTATAAA 10 51 0 TTGAATTCATATAATCACTTTTCCGGAAGCTTC 14 86 1 TCCTTTGTTCATGATCATTTCTCTATTACGATT 14 267 0 AATGATGTAAATAATCATCTTTTTCCGTATGGA 12 167 0 GAAGACTATGGGAACCACTCTCCATACGGAAAA 12 147 1 GGGCGGTGTATCCCTCCTTCCTTTTATAAT 10 110 0 ACCTCCTGATATAATCATTTTTCCTTAACATTG 2 19 0 AGCTTCTCCTGGCTTCATTTTCTGAAAGAACTG 14 113 1 TTAGAACCTTCACTCTAGCAATGAG 0 45 0 AACAGGAGGTGTTACCTTCATTCTCATTGCTAG 0 23 1 ** ** ****** MAP Score: 13.8527 Motif 5 CAGCGTTCTCCCTTCTTAGAGAGA 8 7 0 CAACCCCTTTCTTTCATTATATA 11 3 1 CAAAAAGAACCCCCTTTCATCTCATGTGTA 7 35 0 CGGTGTATCCCTCCTTCCTTTTATAATAAG 10 107 0 TTTGATTCCCTCTCCTTTCAACGCATA 5 283 0 TTGCGGGTTCCCTCCTTAAAATGCTTT 3 7 1 ACTGAATGTACCCCTGTCATTATAATTTTC 5 151 0 TGGTAAGGGGCCACCTCCTTAACG 13 4 0 GGTCAAAGTTCTTCCTGCTTCTCTTTTGAT 3 113 0 AATAAGTGCCTTCTCTTCATACGTAACAAA 10 83 0 CCGGAAGCTTCTCCTGGCTTCATTTTCTGA 14 108 1 AGTTGAAAGTCTTTTTTCTTGCCAGAAAGA 5 178 1 TAGAAAGATGTCCTTTTCTTTGCCAT 10 6 0 TCTCTTTCCCTCCCTCCGAATACAC 11 148 0 ACAGGAGGTGTTACCTTCATTCTCATTGCT 0 24 1 TGCGCTTTTTCTTCCGGCTTGGAGCACACA 14 204 0 CAGGCATTCACCTTTTTCATCAAAAGAGAA 3 95 1 TTTGATTACCTTTTCTTCTTTTTCTACAAT 5 254 1 CTGCTAGATTCCATTTTCATTATGCTGTTT 5 87 0 TGAGTTCACTTTTCCGTCATGAGTGCGACT 11 40 0 TTTGAAAATTCTATCTTCCTATGTTACTTC 1 32 1 ********** MAP Score: 13.8213 Motif 6 ATTCCGGTCTAAAAAAAACAATAAACTTGTGCA 1 90 1 ATCTTTATGCACAAAAACATATATTTTAGCAGG 3 66 1 TTCTCTTTTGATGAAAAAGGTGAATGCCTGCTA 3 92 0 CTGGTCAATAAGCGAAAACAGCATAATGAAAAT 5 72 1 TTCCCTATAAATAAAAAAGCAGACATGGTCACC 5 121 0 GTAATCAAACAGGGAAAACGTGATTTTGTGAGA 5 230 0 TTGTAGAAAAAGAAGAAAAGGTAATCAAACAGG 5 250 0 ATAGAAACGAGGAGAAGTTAT 9 0 1 ATGGCAAAGAAAAGGACATCTTTCTAAG 10 5 1 TTTTTTATGTATAAAAAAAGACATCTCTCTTAG 10 33 0 TTTTTTATACATAAAAAAATGAAACCTTTGATA 10 48 1 CGCACTCATGACGGAAAAGTGAACTCACTTAGT 11 43 1 TAAGGCTTAAAAAAGAAAGCAAAATAAAAACAC 12 93 0 TTATAAGTTCAAAAGAACCTAAAATCAACTCTG 12 200 0 TATTGAATAAACAAAAAACAGTATATATAACAT 12 232 0 CAATCCAATCAGCAAAAAGAACAGGCCTGCTGA 14 173 0 TCCAAGCCGGAAGAAAAAGCGCATTTCTGTACA 14 211 1 ATTTCTGTACACGAGAAAGAAAACTCATTAAAA 14 233 1 * ******* * * MAP Score: 12.4265 Motif 7 GAAGGTAACACCTCCTGTTAGATAAAATGGT 0 11 0 TAAGGAGTCACCTCCTGATATAATCATTTTT 2 30 0 TTGCGGGTTCCCTCCTTAAAATGCTTTCATT 3 10 1 GTCTCAGCCTCCTGATATAAGGGTCAAA 3 136 0 AACTGAATGTACCCCTGTCATTATAATTTTC 5 151 0 TTTGATTCCCTCTCCTTTCAACGCATATTGT 5 279 0 AATGACCCGATCGCCCGTTATCGGGTCATTT 6 15 1 AGTGTTAGAACCTCCTTTCAAATCATACACA 7 10 1 ACAAAAAGAACCCCCTTTCATCTCATGTGTA 7 35 0 CAGCGTTCTCCCTTCTTAGAGAGA 8 7 0 GCGGTGTATCCCTCCTTCCTTTTATAATAAG 10 107 0 CAACCCCTTTCTTTCATTATATA 11 2 1 TCGGAGGTGTACGCCTTACTAGGTAAGGCAA 12 275 1 TCCGGAAGCTTCTCCTGGCTTCATTTTCTGA 14 107 1 GCCGGCAGTTTCGCCTTTTATTTGTTTTCAG 14 146 1 ******* *** MAP Score: 12.187 Motif 8 GTTACCTTCATTCTCATTGCTAGAGTGAAGG 0 33 1 TTAGCAGGCATTCACCTTTTTCATCAAAAGA 3 91 1 AGGGTCAAAGTTCTTCCTGCTTCTCTTTTGA 3 114 0 TGGTGACCATGTCTGCTTTTTTATTTATAGG 5 120 1 TCAGTTGAAAGTCTTTTTTCTTGCCAGAAAG 5 176 1 CAAAATCACGTTTTCCCTGTTTGATTACCTT 5 235 1 TGATTACCTTTTCTTCTTTTTCTACAATATG 5 256 1 CAGCGTTCTCCCTTCTTAGAGAGA 8 8 0 ATAACTTCTCCTCGTTTCTAT 9 5 0 TATCAAAGGTTTCATTTTTTTATGTATAAAA 10 50 0 TGTGTTTTTATTTTGCTTTCTTTTTTAAGCC 12 92 1 TTCCGGAAGCTTCTCCTGGCTTCATTTTCTG 14 106 1 CAGTTTCGCCTTTTATTTGTTTTCAGCAGGC 14 151 1 AGCAGGCCTGTTCTTTTTGCTGATTGGATTG 14 175 1 AATGCGCTTTTTCTTCCGGCTTGGAGCACAC 14 205 0 ATTTTAATGAGTTTTCTTTCTCGTGTACAGA 14 236 0 **** ****** MAP Score: 11.9773 Motif 9 TTTTTTATGTATAAAAAAAGACATCTCTCTTA 10 34 0 AATTTTCCCTATAAATAAAAAAGCAGACATGG 5 126 0 TATTTATTGAATAAACAAAAAACAGTATATAT 12 237 0 AGAAAGCAAAATAAAAACACACCTGAATTTTC 12 81 0 AAGACATTAAATAAATCAAGACGGTTGGGTAT 12 34 1 TTTTTTATACATAAAAAAATGAAACCTTTGAT 10 48 1 CAAATCGAAAATAAACAAAATCACCGCGGATG 14 57 0 GTTTTTGTGCATAAAGATAGAAGGTTAATTCA 3 52 0 GCCTGTCTATATAATGAAAGAAAGGGGTTG 11 8 0 GAAAATCTTTATAAAGACATTAAATAAATCAA 12 21 1 ***** *** ** MAP Score: 5.02852 Motif 10 ACAAGTTTATTGTTTTTTTTAGACCGGAAT 1 90 0 TTCAGTTGAAAGTCTTTTTTCTTGCCAGAA 5 175 1 CCCGTTATCGGGTCATTTTTATGATTGCTT 6 28 1 GATGAAAGGGGGTTCTTTTTGT 7 44 1 CTAAGAGAGATGTCTTTTTTTATACATAAA 10 33 1 AATTCAGGTGTGTTTTTATTTTGCTTTCTT 12 84 1 GTTGATTTTAGGTTCTTTTGAACTTATAAT 12 204 1 TCAGCAGGCCTGTTCTTTTTGCTGATTGGA 14 173 1 ********** MAP Score: 3.50337