AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_operons030_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944245921 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ycgI 166 ycgI #1 nadE 139 NH3-dependent NAD+ synthetase #2 ydbP 174 similar to thioredoxin #3 miaA 98 tRNA isopentenylpyrophosphate transferase #4 ymaH 39 similar to host factor-1 protein #5 spoVK 300 alternate gene name: spoVJ; disruption leads to the production of immature spores (stage V sporulation) #6 ynbA 220 similar to GTP-binding protein protease modulator #7 obg 33 GTPase activity #8 spo0B 300 sporulation initiation phosphoprotein #9 rplU 146 ribosomal protein L21 (BL20) #10 spoIVFA 150 inhibitor of SpoIVFB #11 minC 52 minC #12 mreC 30 cell-shape determining protein #13 mreB 90 cell-shape determining protein #14 ysxA 36 similar to DNA repair protein #15 maf 152 maf #16 spoIIB 133 spoIIB #17 comC 139 DNA-binding protein #18 folC 59 folyl-polyglutamate synthetase #19 valS 300 valyl-tRNA synthetase #20 trxA 300 thioredoxin #21 ytpP 234 similar to thioredoxin H1 #22 yuiE 157 similar to leucyl aminopeptidase #23 ywlF 156 alternate gene name: ipc-32d; similar to ribose 5-phosphate epimerase (pentose phosphate) #24 ywlE 75 alternate gene name: ipc-31d; similar to protein-tyrosine-phosphatase #25 ywlD 78 alternate gene name: ipc-30d; similar to hypothetical proteins #26 ywlC 156 alternate gene name: ipc-29d; similar to hypothetical proteins #27 ywlB 66 alternate gene name: ipc-28d #28 spoIIR 140 alternate gene name: ipc-27d, csfX #29 yyaF 126 similar to hypothetical proteins #30 yyaE 300 similar to formate dehydrogenase Motif 1 AACGTTTTTTGGACAAGGCGACAAAAGTCT 16 28 1 TCGATTGCTTTGAAAAGGCGGAAATACGAG 6 41 0 AAAGGAGAACGGAAAAACCGCTTTTTACAA 0 40 1 GCCCTATTATGGACAAGGAGAGCCTGGGAT 28 85 0 AAAATGGCATTGAAAAGGAGATGTGACAT 2 155 1 CTCTTTTATAAGACAAGGCGGTTTCTCTAG 18 29 0 CACGCTGGGAGGAAAAGCAG 23 146 1 GGGAAGGGAAAGAAAAGGAGTGC 14 23 1 ACCTTCTATATGAAAAAGCATGAGTGTCGG 30 265 0 TTTTAAAACCTGAAAAAGAGCGCCGGCATG 20 10 0 GGCTGAGAACGAAAAAAGAGCTCTTCATCC 19 254 0 TATTGTTCCCGAAAAAAGCAATTGTTTCGA 5 212 1 TGTTTCAAAAGAAAAAAGCAAGTCTTAGAC 22 43 1 GTGTGTAGCATGAAAAGCCGACAAGAACGG 16 86 1 TGAAAAGCCGGGGCGGTTTC 18 0 1 GGAAGAGTACAAAAAAGGCGCATGCAGAGA 19 44 1 ACGCATAGGCTAAAAAAGCGGGGCGTGTCC 25 41 1 TCGTAGAAATGAAAAAACCGCATCCATGCG 30 84 1 GAGAAGAATCTGACAAAGCATATGCTGTGT 10 25 1 GCCCGTTGTATGAAAAAGAAATAATGAGAA 5 64 1 GACATGGGGTGGACAAACCATGAGATTTTG 5 132 0 GTTTAGTCAAGAACAAAGCAGGCAAAAACA 10 67 0 GATATTTCTGGGAAAAACAATTGTTTTTCT 8 198 1 TATATATGAAGAAAAAAGAAACGGCGACTT 24 29 0 GAGGTTCACTGGAAAAGACAAGCTGACAAA 29 40 0 TTTGTGTTTTAAAAAAAGAGCATATCCCAT 20 154 1 TTTTACACATGAAAAAAACGGCAGAATCTT 17 38 0 TAATATAAAATAAAAAGGAATTACATACAA 2 126 0 TATTTGCCATGGACAAGACATATGATGTAC 10 101 1 CCAAAGCCAGAAAAAAGGAACATGATATTT 8 175 1 ATAGGGCTAGAAACAAAGCACGGAGAGGAA 28 108 1 AGGCTTTGTTAGAAAAACAATTGTTTTTCC 8 208 0 ACAGGCAAAGAAAAAAAGAACAAGACTTTT 16 50 0 TTAATTCGACGAAAAAAAAGTG 13 2 0 GGTTTGCTTAAGAAAAAAAGATACTCGTTT 15 115 0 ********** MAP Score: 33.7193 Motif 2 TGCTGGAACCGAGAAAGAAGCCTGTTCCAAT 0 76 1 ACAAAAAAAGACCAGCCAAAAGG 0 153 0 TTACCGATGCAAAAAAAGGGCAAAATGGATA 3 18 1 AAGAAAAACACTTCAGGTATC 5 0 1 AAGAAATAATGAGAAAGAAGCTCACTATAAT 5 79 1 AATACGAGCAAAAAACAGACCTCTCAAAAAC 6 18 0 CAATATGCAAAAGAAAGGAACATCCATTTGA 6 116 1 CGCATATTGCAAAAAAAACTCCAGTCATCAT 8 11 0 CCAAAGCCAGAAAAAAGGAACATGATATTTC 8 175 1 AGGCAAAAACAAAAAAAAACCTGACACAGCA 10 47 0 CGGTTTAGTCAAGAACAAAGCAGGCAAAAAC 10 68 0 TCATGACAAAATAAAAAAAGCCTGTCACTAA 15 36 0 TTGCTTAAGAAAAAAAGATACTCGTTTATCC 15 111 0 ACAGGCAAAGAAAAAAAGAACAAGACTTTTG 16 49 0 GGCAGAATCAAAAAAAGATTCTGCCGTTTTT 17 24 1 AATTTTACACATGAAAAAAACGGCAGAATCT 17 39 0 GGAAGAGTACAAAAAAGGCGCATGCAGAGAG 19 44 1 GGCTGAGAACGAAAAAAGAGCTCTTCATCCC 19 253 0 TTTGTGTTTTAAAAAAAGAGCATATCCCATT 20 154 1 CGTGTTTCAAAAGAAAAAAGCAAGTCTTAGA 22 41 1 TATACCAATAAAAGAAACGAAGTCGCCG 24 7 1 ATATATGAAGAAAAAAGAAACGGCGACTTCG 24 27 0 TATCGTAGAAATGAAAAAACCGCATCCATGC 30 82 1 AAAGAAAACTAAAAAAAGTACTAGTCAAGCA 30 210 1 ********* * MAP Score: 26.5422 Motif 3 CAAATGGATGTTCCTTTCTTTTGCATATTGGG 6 114 0 AAACGGCGACTTCGTTTCTTTTATTGGTATA 24 9 0 AAGTCGCCGTTTCTTTTTTCTTCATATATAAT 24 29 1 TTGTATGTAATTCCTTTTTATTTTATATTAAA 2 126 1 AAAAGTCTTGTTCTTTTTTTCTTTGCCTGTGC 16 50 1 AAATATCATGTTCCTTTTTTCTGGCTTTGGTT 8 173 0 CCGTTCTCCTTTCATTTCTGATCGCAGGGATC 0 20 0 CCCACTACAATTCATCTTTACTATCTTATCAT 2 42 1 ACAGTCATGATTCATTTTCATTGATTTAGGGA 1 74 1 TCACCCCTTATTTTTCTCTATTATATATGAAG 24 48 0 ATGCGGTTTTTTCATTTCTACGATATCATTCA 30 75 0 CTGTGTCAGGTTTTTTTTTGTTTTTGCCTGCT 10 49 1 TCTTTCATCTCCTCTATATAAAACC 29 111 0 CTTTGTCAGATTCTTCTCTTTGATTCTATCAC 10 11 0 AAAGCGGTTTTTCCGTTCTCCTTTCATTTCTG 0 32 0 GCACTCCTTTTCTTTCCCTTCCCGTTTATA 14 16 0 AAAGGATTTTATCTTTTTTTGACGAAATG 11 7 1 CGAGAAATACTTTATTTCTTATTGTATTCACG 5 162 0 ACCATGAGATTTTGTTTTTAATCATTTTGTCA 5 114 0 TTTCTCATTATTTCTTTTTCATACAACGGGCT 5 63 0 CGGCGACATCCTTTCTATTTGAAAAATCC 22 7 1 GTCCCCACCGTTCCTCTCCGTGCTTTGTTTCT 28 116 0 TAGTACTTTTTTTAGTTTTCTTTCAAATTCTC 30 201 0 ATAAACGAGTATCTTTTTTTCTTAAGCAAACC 15 113 1 *** ***** ** MAP Score: 13.456 Motif 4 GCATCGCAATTGTAAAAAGCGGTTTTTCCGTT 0 47 0 ACAAAAAAAGACCAGCCAAAAG 0 154 0 TTTAATATAAAATAAAAAGGAATTACATACAA 2 126 0 TTAAAATGGCATTGAAAAGGAGATGTGACAT 2 153 1 GTTTACCGATGCAAAAAAAGGGCAAAATGGAT 3 16 1 CCCAATATGCAAAAGAAAGGAACATCCATTTG 6 114 1 TTTTTAACGGTTTAGAACGGAGGACATT 7 15 1 AACCAAAGCCAGAAAAAAGGAACATGATATTT 8 173 1 CGGGAGTTCAATAGAAGAGGTGTAACACG 12 11 1 TTAATTCGACGAAAAAAAAGTG 13 0 0 ACGGGAAGGGAAAGAAAAGGAGTGC 14 21 1 TCATGACAAAATAAAAAAAGCCTGTCACTAAA 15 35 0 GCACAGGCAAAGAAAAAAAGAACAAGACTTTT 16 50 0 TGAAAAGCCGACAAGAACGGTCAAGCAAATGA 16 96 1 TTTACACATGAAAAAAACGGCAGAATCTTTTT 17 35 0 GCCTTGTCTTATAAAAGAGGGGATTATCA 18 40 1 CGGGAAGAGTACAAAAAAGGCGCATGCAGAGA 19 42 1 TAATTTCTTGAAAGAAGAGTAGAGAAATTCGG 19 133 1 ATTGAGTTCATGAAAAAAGGTGGTACCGCGAA 19 200 1 TTTAAAACCTGAAAAAGAGCGCCGGCATG 20 7 0 AGTACATGACAGTGAAGAGGAGATGTGATCTT 20 62 1 GATTTGTGTTTTAAAAAAAGAGCATATCCCAT 20 152 1 TATACCAATAAAAGAAACGAAGTCGCCGTTTC 24 10 1 TATGAAGAAAAAAGAAACGGCGACTTCGTTTC 24 23 0 TATAATAGAGAAAAATAAGGGGTGACTGAC 24 55 1 CGCATAGGCTAAAAAAGCGGGGCGTGTCCAAG 25 42 1 GGACAACGCTAATAAAGAAGTGGATAAGTATG 26 24 0 AAGAAAGAACGCAAAAACGGGGTGAACGG 27 47 1 CAAAGCACGGAGAGGAACGGTGGGGACCG 28 121 1 CAGCAGTTTAGGAAAAGAGGTGAAGGGTCTTG 30 24 1 * ******** * MAP Score: 10.5024 Motif 5 TTGTAAAAAGCGGTTTTTCCGTTCTCCTTTCATTTC 0 34 0 AATGATCTAATTATTTTTGGGCATGCTGATGTTGAA 2 85 1 TGTATGTAATTCCTTTTTATTTTATATTAAAATGGC 2 127 1 CATTTTGCCCTTTTTTTGCATCGGTAAACATCCTT 3 9 0 CCATGAGATTTTGTTTTTAATCATTTTGTCAGAGTA 5 109 0 TTTGAGAGGTCTGTTTTTTGCTCGTATTTCCGCCTT 6 21 1 TGACTGGAGTTTTTTTTGCAATATGCGGAGTAAACA 8 15 1 TGTGTCAGGTTTTTTTTTGTTTTTGCCTGCTTTGTT 10 50 1 TAGTGACAGGCTTTTTTTATTTTGTCATGAAAAAGT 15 37 1 TAAACGAGTATCTTTTTTTCTTAAGCAAACCCTGAA 15 114 1 AAAAGTCTTGTTCTTTTTTTCTTTGCCTGTGCTAAA 16 50 1 ACGGCAGAATCTTTTTTTGATTCTGCCGGAGCCGGA 17 15 0 AAGATTCTGCCGTTTTTTTCATGTGTAAAATTGAAT 17 38 1 CTCAGGATGTCCATTTTGCTACAATCCATACCAGAA 17 88 1 CTGCATGCGCCTTTTTTGTACTCTTCCCGTTCTAAG 19 35 0 GGATGAAGAGCTCTTTTTTCGTTCTCAGCCATTTTT 19 254 1 TCGTTCTCAGCCATTTTTAAACATGCTGGAGGGTTA 19 272 1 GCCGGTTTACTCATTTTTATATGGTTGAATGGGATA 20 176 0 TGCTTACAAATTATTTTTTCCTGATCACAGCCGGTT 20 205 0 ACTTGCTTTTTTCTTTTGAAACACGAAGGATTTTTC 22 30 0 AAGTCGCCGTTTCTTTTTTCTTCATATATAATAGAG 24 29 1 CAGTCACCCCTTATTTTTCTCTATTATATATGAAGA 24 47 0 ACACGCCCCGCTTTTTTAGCCTATGCGTGTCCAAAA 25 33 0 TGGATAACGCTTGTTTTATTACAGGACATCTTTTAT 26 64 1 TGAGGCAAATCTATTTTTAGACCAGATGA 27 3 0 CCGTTCACCCCGTTTTTGCGTTCTTTCTTCCAATC 27 41 0 AGCTTGCTAGATTTTTTTCACCCTGCACGTTTATCC 28 53 1 ** ***** * ** MAP Score: 10.2226 Motif 6 CTATAAACGGGAAGGGAAAGAAAAGGAGTGC 14 15 1 CAAACCCAACGAATGCAAAGGATGATGGCA 10 130 1 TTTTCATATAGAAGGTAAGGAGAAGACGGCG 30 279 1 AATCCTGCGTGAAGGAGTAGAATATAGTGAAAAG 23 43 1 CACCTGCTTAGAACGGGAAGAGTACAAAAAAGGC 19 29 1 CCCAATATGCAAAAGAAAGGAACATCCATTTGAA 6 114 1 TAATAAGGGAAAATGTACAGGAGGAATGATTGGG 1 115 1 CTGCGATCAGAAATGAAAGGAGAACGGAAAAACC 0 25 1 ACGGTCAAGCAAATGAAGGGAGGAAGCGGAA 16 112 1 TAATCCTTTTGAAAGTATAAAAGATGTCCTGTAA 26 82 0 CAAAAAAGGCGCATGCAGAGAGAGAAGCCGTTTG 19 53 1 AAATGGCTGAGAACGAAAAAAGAGCTCTTCATCC 19 254 0 AAAATAGCGTGAACGAATGGGAGATGCTATACTA 20 243 1 ACACTTTAGCACAGGCAAAGAAAAAAAGAACAAG 16 56 0 TTCGTGTTTCAAAAGAAAAAAGCAAGTCTTAGAC 22 39 1 ACATCCATTTGAACGAACAAGAAACGATTCAGGA 6 135 1 AGCCTGGGATAAACGTGCAGGGTGAAAAAAATCT 28 61 0 ATAATTTCTTGAAAGAAGAGTAGAGAAATTCGGG 19 132 1 TCATCCCTGTAAAAGGACGAAAAGCTCTTTCGCG 19 226 0 CCGATGCAAAAAAAGGGCAAAATGGATAGGTGGT 3 21 1 ACCTAGAATGAAATGCAGAGTATGTGCGAGCAGA 8 50 1 TCAATTTTACACATGAAAAAAACGGCAGAATCTT 17 38 0 TCGTCCTTTTACAGGGATGAAGAGCTCTTTTTTC 19 240 1 CAAAAGGATTACACGCGTAAAACAATCGTTTTAT 26 105 1 TTTGCTTTAAGAAAGGAAGATACATACAT 13 71 1 *** * * **** * MAP Score: 9.96755 Motif 7 ACTTGCTTTTTTCTTTTGAAACACGAAGGATTTTT 22 31 0 TGGATAACGCTTGTTTTATTACAGGACATCTTTTA 26 64 1 TGAGGCAAATCTATTTTTAGACCAGATGA 27 4 0 CCTGCCGGAGCTGTTTTAAAACCTGAAAAAGAGCG 20 18 0 AATGATCTAATTATTTTTGGGCATGCTGATGTTGA 2 85 1 TCGTTCTCAGCCATTTTTAAACATGCTGGAGGGTT 19 272 1 GATGTTCTAACCCTTTTTGGACACGCATAGGCTAA 25 19 1 CTCCAGTTGTTTATGTTCTTACATGTTTTTTATCG 21 200 0 AAAAAAGCAATTGTTTCGACACATGATAGGCGTTT 5 223 1 ATTTGACGAACGTTTTTTGGACAAGGCGACAAAAG 16 20 1 ATAATCCCCTCTTTTATAAGACAAGGCGGTTTCTC 18 32 0 TGACTGGAGTTTTTTTTGCAATATGCGGAGTAAAC 8 15 1 CCATTTTGCCCTTTTTTTGCATCGGTAAACATCCT 3 11 0 TCAGGTTTTTTTTTGTTTTTGCCTGCTTTGTTCTT 10 54 1 GTCTTGTTCTTTTTTTCTTTGCCTGTGCTAAAGTG 16 54 1 GGATATGCTCTTTTTTTAAAACACAAATCTGATAA 20 146 0 AGAAAAATAACTTTTTCATGACAAAATAAAAAAAG 15 47 0 GAAAAACAATTGTTTTTCTAACAAAGCCTTCTCTG 8 209 1 ** **** *** * MAP Score: 6.24315 Motif 8 TTTGTGGTATACACATGCAGGGTTTGGTATGATAATACTACT 6 71 1 TGTGCGAGCAGACCCCGCCAAGAATGAGAATAAACATCTCAA 8 72 1 GTCAAGAACAAAGCAGGCAAAAACAAAAAAAAACCTGACACA 10 50 0 ACACACTTTAGCACAGGCAAAGAAAAAAAGAACAAGACTTTT 16 50 0 CGACAAGAACGGTCAAGCAAATGAAGGGAGGAAGCGGAA 16 104 1 AAGCATCCGGCTCCGGCAGAATCAAAAAAAGATTCTGCCGT 17 9 1 GCTGATAAATACACCTGCTTAGAACGGGAAGAGTACAAAAAA 19 18 1 TACAAAAAAGGCGCATGCAGAGAGAGAAGCCGTTTGCTGAAA 19 51 1 TTTTAAAACAGCTCCGGCAGGGCATGGTAAAGTACATGACAG 20 32 1 AAAAATGAGTAAACCGGCTGTGATCAGGAAAAAATAATTTGT 20 194 1 GTCATTTGCAAATCCTGCGTGAAGGAGTAGAATATAGTGAAA 23 33 1 GGGCCGCATCACACACGCTGGGAGGAAAAGCAG 23 133 1 AACCCTTTTTGGACACGCATAGGCTAAAAAAGCGGGGCGTGT 25 27 1 GCCCTATTATGGACAAGGAGAGCCTGGGATAAACGTGCAGGG 28 73 0 * ** ** * ** * * MAP Score: 5.08308 Motif 9 GTATGTAATTCCTTTTTATTTTATATTAAAAT 2 128 1 CCATTTTGCCCTTTTTTTGCATCGGTAAACAT 3 14 0 TTTCTCATTATTTCTTTTTCATACAACGGGCT 5 63 0 TTATAGTGAGCTTCTTTCTCATTATTTCTTTT 5 77 0 CTTCACCTCTCTGTTCTCTCTATATGA 5 283 0 TTTGAGAGGTCTGTTTTTTGCTCGTATTTCCG 6 21 1 TGGATGTTCCTTTCTTTTGCATATTGGGCAGT 6 110 0 TCATGTTCCTTTTTTCTGGCTTTGGTTGATTT 8 168 0 CTAACAAAGCCTTCTCTGTTATAATTCATAAT 8 226 1 TTGTCAGATTCTTCTCTTTGATTCTATCACA 10 9 0 TGTGTCAGGTTTTTTTTTGTTTTTGCCTGCTT 10 50 1 CACTTTTTTTTCGTCGAATTAAGC 13 2 1 GCACTCCTTTTCTTTCCCTTCCCGTTTA 14 18 0 AGTGACAGGCTTTTTTTATTTTGTCATGAAAA 15 38 1 TAAACGAGTATCTTTTTTTCTTAAGCAAACCC 15 114 1 AAAGTCTTGTTCTTTTTTTCTTTGCCTGTGCT 16 51 1 AACGGCAGAATCTTTTTTTGATTCTGCCGGAG 17 20 0 AAGATTCTGCCGTTTTTTTCATGTGTAAAATT 17 38 1 CAGCAAACGGCTTCTCTCTCTGCATGCGCCTT 19 58 0 GGATGAAGAGCTCTTTTTTCGTTCTCAGCCAT 19 254 1 CTAAGACTTGCTTTTTTCTTTTGAAACACGAA 22 39 0 ACGAAGTCGCCGTTTCTTTTTTCTTCATATAT 24 26 1 ACCCCTTATTTTTCTCTATTATATATGAAGAA 24 46 0 ACACGCCCCGCTTTTTTAGCCTATGCGTGTCC 25 37 0 CCCCGTTTTTGCGTTCTTTCTTCCAATCTATG 27 37 0 GCTGAAAATGCTTTTTTGTCAGCTTGTCTTTT 29 26 1 TGACTAGTACTTTTTTTAGTTTTCTTTCAAAT 30 205 0 ******* ** * MAP Score: 1.15747 Motif 10 TATAGCATTCAACATGGACAACCACCTATCCATTTT 3 39 0 AATGAGAATAAACATCTCAAACCCACTGGATATGTT 8 94 1 AGGTGTTAAGAGCTTTTACAGCCCCCTGGTATCTGG 9 90 1 TAAAGTGTGTAGCATGAAAAGCCGACAAGAACGGTC 16 82 1 CCAATCAGACAACATAAGAAGCCTTTCAGCAAACGG 19 80 0 CTGACAAAAAAGCATTTTCAGCTTGCCAATCCCTTT 29 12 0 GTACTAGTCAAGCATGAGGAGCCTACTTCATAAATA 30 227 1 ***** **** * MAP Score: 0.973882 Motif 11 CCATTTTGCCCTTTTTTTGCATCGGTAAACAT 3 14 0 TTTTTAATCATTTTGTCAGAGTATTATAGTGA 5 100 0 GAGAGGTCTGTTTTTTGCTCGTATTTCCGCCT 6 24 1 ATCATGTTCCTTTTTTCTGGCTTTGGTTGATT 8 169 0 ACAGCATATGCTTTGTCAGATTCTTCTCTTTG 10 21 0 TGTGTCAGGTTTTTTTTTGTTTTTGCCTGCTT 10 50 1 CACTTTTTTTTCGTCGAATTAAGC 13 2 1 AGAACAAGACTTTTGTCGCCTTGTCCAAAAAA 16 32 0 AAAGTCTTGTTCTTTTTTTCTTTGCCTGTGCT 16 51 1 GCTTGACCGTTCTTGTCGGCTTTTCATGCTAC 16 90 0 ACGGCAGAATCTTTTTTTGATTCTGCCGGAGC 17 19 0 TGCCGGCGCTCTTTTTCAGGTTTTAAAACAGC 20 12 1 TTACAAATTATTTTTTCCTGATCACAGCCGGT 20 206 0 CATTATCATATTTTATTTGCATTATCAAGCTC 21 79 0 TCGCCGTTTCTTTTTTCTTCATATATAATAGA 24 32 1 ACACGCCCCGCTTTTTTAGCCTATGCGTGTCC 25 37 0 CTTGCTAGATTTTTTTCACCCTGCACGTTTAT 28 55 1 GACAAAAAAGCATTTTCAGCTTGCCAATCCCT 29 14 0 GAAAATGCTTTTTTGTCAGCTTGTCTTTTCCA 29 29 1 ******* ** * MAP Score: 0.366258