AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_fusions014_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944241002 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ycsD 85 similar to hypothetical proteins from B. subtilis #1 ycsE 202 similar to hypothetical proteins from B. subtilis #2 ycsF 204 similar to lactam utilization protein #3 ycsG 203 alternate gene name: ycsH; similar to branched chain amino acids transporter #4 ycsI 23 similar to hypothetical proteins #5 ycsJ 43 similar to allophanate hydrolase #6 yerL 300 alternate gene name: yedA; similar to hypothetical proteins #7 ylaM 102 similar to glutaminase #8 ylaN 97 ylaN #9 ylaO 205 similar to cell-division protein #10 pycA 74 pyruvate carboxylase #11 yngG 250 similar to hydroxymethylglutaryl-CoA lyase #12 yngI 43 similar to long-chain acyl-CoA synthetase #13 yngJ 90 similar to butyryl-CoA dehydrogenase #14 ynzE 270 ynzE #15 yngK 135 alternate gene name: yotA; similar to hypothetical proteins #16 yngL 110 yngL #17 ppsD 24 peptide synthetase #18 ppsB 24 peptide synthetase #19 ppsA 300 peptide synthetase #20 yqjC 201 similar to hypothetical proteins #21 yqjB 51 similar to hypothetical proteins #22 yqjA 70 yqjA #23 yqiY 80 similar to amino acid ABC transporter (permease) #24 yqiX 268 similar to amino acid ABC transporter (binding protein) #25 yqiW 162 similar to hypothetical proteins from B. subtilis #26 accB 155 acetyl-CoA carboxylase subunit (biotin carboxyl carrier subunit) #27 spoIIIAC 22 spoIIIAC #28 spoIIIAA 75 spoIIIAA #29 yqhV 144 alternate gene name: yqgE #30 efp 24 elongation factor P #31 yqhS 86 similar to 3-dehydroquinate dehydratase #32 yqhR 226 yqhR Motif 1 CAACCTAATGAAAAAGGAGGAGCTT 21 36 1 AAAAAAGCGGCTCAACTTTT 23 0 1 AGACAGCAGGAAAAAAGCGGGCAGCTGGTC 3 176 1 AGAAGTCAAAAAAAAGGAAGGCGACTTTGT 11 170 1 GAAAATGTAGAAAAAAGCAGAAAAATGACA 19 246 0 CTATAACGATAAAAAAGCAGGCGCC 20 5 0 ATAATGGTCAAAAAAAGGAGATATAAA 0 68 1 AATATAAAAAAGAAGAAGGCTGGCC 22 5 1 TTTCTTCAATAAAAAAGAAGAGGCGGCCAG 22 29 0 AAAGGAAAAAAGAAGTCTGTTCCCA 29 5 1 CTGCTTACAGAAAAAGGGGATTATATAACC 25 37 0 ACAGATGATGAAAAAGGAGAGGTCTTCA 25 144 1 CCAGCGGGACAAAAAAGCGATTTCCTATGT 1 126 0 CCTATCATTAAGAAAGGAGGAACAATGA 12 25 1 GCCAATCGGTAGAAAGGAGGAGGCTCTG 28 57 1 GGAGCAGCAGAAAAAGACAGCAGGAAAAAA 3 162 1 AGATGAGAGAAAAATAGCGGTTATAAAAAA 9 43 0 AAAAAGAGAGTCCTAAGATG 2 0 1 CTGCCAAACTAAAAAGAGAGTCCATCTTAG 2 22 0 TTCTTGATACAAAAAGAAAGACGGACAGAG 16 35 0 ACATGACAGAAAAAAAACAGCAAAACAAAC 1 52 0 ATCATATAAAAAAATGGGAGGTTGGGAGAG 29 120 1 GTAACCTATAAAAAAAGAAATTTCATACAT 26 121 1 AAATTTGATAAAAAAAGAAACGAAAAATAA 19 97 1 CACTTTTTAAAAAAAGACGACTTAGAAAGC 14 25 0 TTTTCCTGTAAGAAAAGGAGACAAAGGCT 23 61 1 AGCCTCCAAGAAAAAGGATGATGTTATCAT 16 85 0 GTAAAATTTGAAAATAACGGGTATAATGCA 32 134 0 GGAATCGATGAAAATGGAAATCCCGATCGT 11 116 1 AACCAGAAGGAAAATAAAGGAGCAGTTGTA 25 11 0 ATTTTATACTAAAATGAGGAGAAGGAGAAA 6 159 0 GTAGTAAAATAAAAAAGATAAATACATAAA 9 144 1 AAAAAGCAGAAAAATGACAATAAAAGAAAT 19 235 0 CGAAGAGGCCAAAAAAAGTGCACGGCGAAG 25 71 1 TACTATATTCAAAAAAAATGTTATAAAAAT 19 135 1 AAAGAAACGAAAAATAAAGAAATAATACTA 19 110 1 GTATTGCATAAAAATGAGAAACTGTTTAAA 24 186 1 ********** MAP Score: 41.5764 Motif 2 TTGTTCCTCCTTTATGTTGACCTCTGTTCTGAAATAGCTG 3 117 0 TTGAAAGCGTTTTATTCTTTATTCCCTTCTAGGTTTGCAA 6 81 0 AGTCATATAATTTCTTTTATTGTCATTTTTCTGCTTTTTT 19 226 1 CCTCTTGCATTTTCTGTTGATACCCTTTATGATAAATAGA 8 30 1 GTATTATTTCTTTATTTTTCGTTTCTTTTTTTATCAAATT 19 98 0 ATTTTTCTGCTTTTTTCTACATTTTCTTATCCTCTTATTA 19 250 1 TTTCTGAATATTTTTACTTTAATTATTTTTTGAAAGCGTT 6 110 0 TTTCATTTGGTTTGTTTTGCTGTTTTTTTTCTGTCATGTT 1 43 1 CCTGTACGTGTTTCTCTTCGATTTTATTTTTATTTAGTAC 14 171 0 CAACTGCTCCTTTATTTTCCTTCTGGTTATATAATCCCCT 25 13 1 AAATATTTCGTTTCTCCTTCTCCTCATTTTAGTATAAAAT 6 149 1 TATACACTACTTTTTAATCGGACTAATTTTCTTTTGTGCA 19 16 0 GCTGCCCGCTTTTTTCCTGCTGTCTTTTTCTGCTGCTCCA 3 161 0 GTCGCCTTCCTTTTTTTTGACTTCTTTTACGATTCCGCTT 11 155 0 TTATCTTTTTGTTGTGCTTCTCTCTATTCTAATACATTAT 1 158 0 TGTGAGCTTTTTTATTGACATTTCATTTTTTGGGCACACT 32 181 1 ATCTATGGTTTTTATGTATTTATCTTTTTTATTTTACTAC 9 144 0 CTCACCGTTTGTTTTCCTCTTATTCATTCTCCTCAAACAT 1 90 1 AGTTTGGGTTTTTTTATAACCGCTATTTTTCTCTCATCTC 9 34 1 ATGGACTCTCTTTTTAGTTTGGCAGGTTTTATTCTGGGAC 2 27 1 CGGCTCAACTTTTTCGTTGAGCCTTTTTATTGAATAGGAA 23 17 1 AGGAAATCGCTTTTTTGTCCCGCTGGGTATAATGTATTAG 1 130 1 AAAGACGGTCTTTTTTTACACATTCCTTCCGAATCGTATA 9 77 1 ACGATCGGGATTTCCATTTTCATCGATTCCAAAATGGCTA 11 106 0 TTTGTTTAATTGCTCCACTTATA 4 1 0 ATGTATGAAATTTCTTTTTTTATAGGTTACTACTAAAAGT 26 111 0 TACGTTTTCATTTCTAGTCTGGTTAGGTGCCACATTATTT 14 219 1 TCTGTTTCTTCTCCCCCATTACATCACTTTCA 15 113 0 GAATTGTCACTTTGTGTACAAATTATGTGTATTGAAATGC 7 51 1 *** * * ** ** * MAP Score: 30.5682 Motif 3 TTCATTTGGTTTGTTTTGCTGTTTTTTTTCTGT 1 44 1 ACCTCACCGTTTGTTTTCCTCTTATTCATTCTC 1 88 1 GGAAATCGCTTTTTTGTCCCGCTGGGTATAATG 1 131 1 CTTTATCTTTTTGTTGTGCTTCTCTCTATTCTA 1 167 0 TCCTGCTGTCTTTTTCTGCTGCTCCATCTATTG 3 154 0 CAGCTGCCCGCTTTTTTCCTGCTGTCTTTTTCT 3 170 0 AAAAATATTTCGTTTCTCCTTCTCCTCATTTTA 6 147 1 TTTATCTTTTTTATTTTACTACAATTTATCAAA 9 133 0 ACTTTTCTCCCCCTTACCCGAATG 10 60 0 GCCACATTATTTTTTGTGCTGTTCGGAGATGCT 14 247 1 TCTGTTTCTTCTCCCCCATTACATCACT 15 117 0 TTAATGTTTTTTATTGTACTTTAAAAAATATCC 19 165 1 TTTATTGTCATTTTTCTGCTTTTTTCTACATTT 19 241 1 TTTCTACATTTTCTTATCCTCTTATTATGAGAA 19 263 1 GAATAGGAAACTTTTTTCCTGTAAGAAAAGGAG 23 48 1 AGCCTTTGTCTCCTTTTCTTACAGGAA 23 63 0 AACTGCTCCTTTATTTTCCTTCTGGTTATATAA 25 14 1 TTTTGGCCTCTTCGTTTACTGCTTACAGAAAAA 25 52 0 GTTTAGCGGGCTTTTTTCCCTCATTC 26 3 0 GTTTAATGTCCTCCTATATTCCAA 30 9 0 GCCATAGCCTTGCTTTTCCTACATGCATTATAC 32 111 1 ** ** **** ** MAP Score: 21.8282 Motif 4 TATATCTCCTTTTTTTGACCATTATATCTC 0 63 0 TTGCTGTTTTTTTTCTGTCATGTTTGATCA 1 59 1 AGGAAATCGCTTTTTTGTCCCGCTGGGTAT 1 130 1 CCATGGTAGGTTTTCTGACAAAAGTATTTC 2 66 1 CTTTATGTCATTTATTGTCCCGAAATTCGG 2 154 0 AAACGATATGCTTTATGTCATTTATTGTCC 2 164 0 CAGTTTGGGTTTTTTTATAACCGCTATTTT 9 33 1 TAACCGCTATTTTTCTCTCATCTCATAAAA 9 50 1 ACTTTTCTCCCCCTTACCCGAA 10 62 0 TTTCCACAGGTTTCCTGCCATTTGTATGCT 11 33 0 ATGTAAACGCTTTCCTATCATTAAGAAAGG 12 12 1 TTTTCAGACTTTTCTTGTCAGGGAATGATT 13 21 1 TTTACCATCGTTTCCTGTCCCAAAATCACT 14 51 0 AACCGCTGAATTTTTTAAAAAACAAAGGTG 14 79 1 TGCCACATTATTTTTTGTGCTGTTCGGAGA 14 246 1 TCTGTTTCTTCTCCCCCATTACAT 15 121 0 ACAGAGGCCATTCTCTGTCCGTCTTTCTTT 16 23 1 GTTCATGTCTCCTGTCACGATTTT 17 7 0 TATAATTTCTTTTATTGTCATTTTTCTGCT 19 231 1 TTTTCTACATTTTCTTATCCTCTTATTATG 19 262 1 TGAGACATGATTTTCTCTCCTTAAACAATC 20 114 1 AGGAAACTTTTTTCCTGTAAGAAAAGGAGA 23 52 1 CAGCCCGGGTTTTTTTGTGCATAAATTTCC 24 35 1 ATAATCCCCTTTTTCTGTAAGCAGTAAACG 25 43 1 GCCGTGCACTTTTTTTGGCCTCTTCGTTTA 25 67 0 AGCAGGCTTTTTTTGTGCCCAAAAACAGAA 29 41 1 ********** MAP Score: 4.91179 Motif 5 ATAATGGTCAAAAAAAGGAGATATAAA 0 68 1 ATTCTCCTCAAACATAGGAAATCGCTTTTT 1 115 1 AACAAAAAGATAAAGAGAGGTACATAT 1 185 1 GTTTGCTTTGGCAGGAGGGATTCT 2 190 1 AGGTCAACATAAAGGAGGAACAATAGATGG 3 134 1 TGGAGCAGCAGAAAAAGACAGCAGGAAAAA 3 161 1 AGACAGCAGGAAAAAAGCGGGCAGCTGGTC 3 176 1 AAAATGAGGAGAAGGAGAAACGAAATATTT 6 149 0 TATATGACTTAACGGAGAAATATGTGGAGG 6 272 1 AATTGTAGTAAAATAAAAAAGATAAATACA 9 140 1 AAGAAGTCAAAAAAAAGGAAGGCGACTTTG 11 169 1 CTTTGTAAATGAAGGAGACGTACTGCTCGA 11 194 1 TATCATTAAGAAAGGAGGAACAATGA 12 27 1 ACAAAGATGTGAAGGAGGAAACGAT 13 75 1 GAAATGAGAAGGACGGCTTTC 14 1 1 TCACTAAATAAACGAAAAAAGTCCTAAAGC 15 26 0 TCTTGATACAAAAAGAAAGACGGACAGAGA 16 34 0 AAAATCGTGACAGGAGACATGAAC 17 9 1 GAATGATGCACAAAAGAAAATTAGTCCGA 19 9 1 AAATTTGATAAAAAAAGAAACGAAAAATAA 19 97 1 AATGTAGAAAAAAGCAGAAAAATGACAATA 19 243 0 CTATAACGATAAAAAAGCAGGCGCC 20 5 0 ACAGATTGTTTAAGGAGAGAAAATCATGTC 20 117 0 TCTATTAGCGAAAGCAGGGATGAAA 20 186 1 ACCTAATGAAAAAGGAGGAGCTT 21 38 1 AATATAAAAAAGAAGAAGGCTGGCCGC 22 7 1 CTTCAATAAAAAAGAAGAGGCGGCCAGCCT 22 26 0 AAAAAAGCGGCTCAACTTTT 23 0 1 TCCTTTTCTTACAGGAAAAAAGTTTCCTAT 23 50 0 TCCTGTAAGAAAAGGAGACAAAGGCT 23 64 1 TATTGCATAAAAATGAGAAACTGTTTAAAA 24 187 1 GAAGGAAAATAAAGGAGCAGTTGTAT 25 6 0 GTAAGCAGTAAACGAAGAGGCCAAAAAAAG 25 59 1 AACAGATGATGAAAAAGGAGAGGTCTTCA 25 143 1 TGTTCATCTTACAGGAGCGGACTTGTGAAT 26 73 0 AGTAACCTATAAAAAAAGAAATTTCATACA 26 120 1 CAATCGGTAGAAAGGAGGAGGCTCTG 28 59 1 ATTTCCGTATAAAAGAAAGATTCTGTTTTT 29 61 0 ACCCTCGCGAAAAGGAGAGATTGT 31 72 1 CAATAGAGTGAAAGGAAATGGTTAGCAATC 32 35 0 ********** MAP Score: 2.62329 Motif 6 TTTATATCTCCTTTTTTTGACCATTA 0 69 0 TTTGCTGTTTTTTTTCTGTCATGTTTGATCACCTCA 1 58 1 GTTTTGTTGCTTTAAAGGGCTTGTTTTTGATATGAT 6 230 1 TCGCCTTCCTTTTTTTTGACTTCTTTTACGATTCCG 11 158 0 GAAGGACGGCTTTCTAAGTCGTCTTTTTTTAAAAAG 14 17 1 TAAAAAGTAGTGTATAAGACCTTATGTAAAACAATA 19 40 1 AAACATTAAATTTTTATAACATTTTTTTTGAATATA 19 138 0 ATATAATTTCTTTTATTGTCATTTTTCTGCTTTTTT 19 230 1 TTTTCATCAGTTTTTGAGACATGATTTTCTCTCCTT 20 100 1 *** * * * * *** MAP Score: 0.0409314