AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_operons062_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944247793 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ycbA 300 alternate gene name: yzgA; similar to two-component sensor histidine kinase [YcbB] #1 ycbC 226 similar to 5-dehydro-4-deoxyglucarate dehydratase #2 ycbD 29 similar to aldehyde dehydrogenase #3 spoVK 300 alternate gene name: spoVJ; disruption leads to the production of immature spores (stage V sporulation) #4 ynbA 220 similar to GTP-binding protein protease modulator #5 ynbB 187 similar to hypothetical proteins #6 glnR 110 transcriptional regulator #7 glnA 60 glutamine synthetase #8 gbsA 198 glycine betaine aldehyde dehydrogenase #9 yugK 103 similar to NADH-dependent butanol dehydrogenase #10 yugJ 229 similar to NADH-dependent butanol dehydrogenase #11 ywdH 167 alternate gene name: ipa-58r; similar to aldehyde dehydrogenase Motif 1 ACATTTTGAAAATAAGCAGTAAGATTTATAAA 0 82 1 TTTGACCCAGAACATGAGGTTTTTATAAATCT 0 103 0 GGTTTATTGAAAAAGACGGATATATACTGGCC 0 205 1 ATATTTTATAAAAAAGCGGTAAATCACTGTCC 1 61 0 AAAATATCAGAAAATAAAGATATTGACTTATT 1 86 1 CTTACAATTAAACAAAAGGATATATGGGAAGG 1 128 1 ATACACAAATAACAGGAGGTTATGTTG 1 209 1 GATTGCTTTGAAAAGGCGGAAATACGAGCAAA 4 37 0 CCCAATATGCAAAAGAAAGGAACATCCATTTG 4 114 1 GGCTATGTCCAAGAAGAGCAAAGTATCATCGG 5 126 1 ATTATGTGTCAATACGATGTAAGGATTCTTAA 6 40 0 CTAAGTTAAGAAAAGGAGGAAATTGAG 6 93 1 TTTACCTTTTAAGAGGAGGAATTTTACCAA 7 40 1 TAAGATAAAGAACATAAAGAAATAACTTAACG 8 42 0 ATCTTAACGAAACATGAGGAAAAGTCAAAAAG 8 68 1 AAAAAGGGGAAATAGCCGTTTG 9 0 1 TGATGCTGGTAAAAAACAGATTTTCCATTGTA 9 66 0 GGTGCTGGGAAAGAAGCTGATATAAGCGAGGG 10 107 0 GGAATTTGATAAAATGCAGGAAGACAACATTT 11 30 0 ATTCCTGCTGAAAACGCAGATATGAGTTTGTT 11 57 1 CATACCTTACAAAAAGGAGAAACGGA 11 151 1 ** * ******* MAP Score: 23.9093 Motif 2 CGACAAAAACATTTTGAAAATAAGCAGTAA 0 74 1 GAACATGAGGTTTTTATAAATCTTACTGCT 0 96 0 ATTTACCGCTTTTTTATAAAATATCAGAAA 1 69 1 GTTTTTAATCATTTTGTCAGAGTATTATAG 3 103 0 ACGGATGAGCATTTTGAAAATTCT 4 206 1 ATTTTTTAAAAATTTCTCCTGG 6 2 1 AAGAGGAGGAATTTTACCAA 7 50 1 AAATTTAATGTTTTTAACAACCTTAATCTA 8 141 0 CCCTTTTTCTTTTTTGTCAACTTATGTTAC 9 39 1 GAAAATCTGTTTTTTACCAGCATCATTTGG 9 73 1 AGATGGTTTTATTTTGCAAGGTGCTGGGAA 10 128 0 GTCTTCCTGCATTTTATCAAATTCCTGCTG 11 37 1 CCGTTTCTCCTTTTTGTAAGGTATGGTGAT 11 146 0 ********** MAP Score: 9.53372 Motif 3 GTTTGTCAGAAAAAATAACAAACTCATATCTGCGTTTTC 11 66 0 AGTCAAAAAGAAAAATCAAAATGGGACTTTGACAGTTTA 8 90 1 TTGACAGTTTAAAAACCATATGTTAGATTAAGGTTGTTA 8 118 1 TGATGCTGGTAAAAAACAGATTTTCCATTGTAACATAAG 9 59 0 CCCGATTCCCCAAAATAAAAAGCGAGGATGTGATCAACA 0 154 1 CAAAATGATTAAAAACAAAATCTCATGGTTTGTCCACCC 3 117 1 CAGCACCTTGCAAAATAAAACCATCTGGTATGCTGATCG 10 132 1 ATGTGAAAGAAAAATTAATAAAAGCGCTTACAGATAGAG 1 165 1 TAAGTTGACAAAAAAGAAAAAGGGAAGCAGCCAAACGGC 9 24 0 TAAGGTTGTTAAAAACATTAAATTTTTATTTAACAAACT 8 146 1 AGCACCCTCCAAAAAAATAAATGTTGTCTTCCTGCATTT 11 12 1 AAAATATCAGAAAATAAAGATATTGACTTATTGTTTATT 1 86 1 TTTAATGAAGAAAATGAACAGTATGACATATCCGGCTAT 5 93 1 CTGCATAATAAAAAATCTAAGGAGGAGATGTC 10 207 1 GGCCGTATACACAAATAACAGGAGGTTATGTTG 1 203 1 TTCTGCGCAGCAAAAAAACAGCCTGGTCAGCCGGCTGTT 1 14 0 AAATACGAGCAAAAAACAGACCTCTCAAAAACTGAGAGG 4 11 0 CGTTTCGTACAAAAATCAGCCCGTTGTATGAAAAAGAAA 3 46 1 ***** ** * * * MAP Score: 9.43046 Motif 4 ATTCCCCAAAATAAAAAGCGAGGATGTGATCAACAT 0 158 1 ATTCTGCGCAGCAAAAAAACAGCCTGGTCAGCCGGC 1 18 0 AGACAAATAAACAATAAGTCAATATCTTTATTTTCT 1 94 0 CCAGAAAAAACACGAAAGGGGCAATGGG 2 2 1 AAGAAAAACACTTCAGGTATCTTAGG 3 0 1 GCCCGTTGTATGAAAAAGAAATAATGAGAAAGAAGC 3 64 1 AAAATGATTAAAAACAAAATCTCATGGTTTGTCCAC 3 118 1 GTCCGTGAATACAATAAGAAATAAAGTATTTCTCGG 3 159 1 TTTTTCGGGAACAATAAGGAATCCTGCGCTTTCCCG 3 192 0 CCCAATATGCAAAAGAAAGGAACATCCATTTGAACG 4 114 1 ATTTGAACGAACAAGAAACGATTCAGGAGAAAGCCA 4 141 1 AAAAGTCAAAAAGAAAAATCAAAATGGGACTTTGAC 8 87 1 TTGACAAAAAAGAAAAAGGGAAGCAGCCAAACGGCT 9 23 0 AGCACCTTGCAAAATAAAACCATCTGGTATGCTGAT 10 133 1 GTCAGAAAAAATAACAAACTCATATCTGCGTTTTCA 11 65 0 GATTTTTCACATAATAAATCACCATACCTTACAAAA 11 129 1 * ** *** * *** MAP Score: 8.4895 Motif 5 GGAGACTACAGAATCATACAAAATACGACAAA 0 49 1 TACGACAAAAACATTTTGAAAATAAGCAGTAA 0 72 1 TAAGCAGTAAGATTTATAAAAACCTCATGTTC 0 94 1 AACTGGAACGGTTTATTGAAAAAGACGGATAT 0 196 1 GGGATTCTGCGCAGCAAAAAAACAGCCTGGTC 1 25 0 ATTTTCTGATATTTTATAAAAAAGCGGTAAAT 1 69 0 AAATCAGCCCGTTGTATGAAAAAGAAATAATG 3 58 1 ACTCTGACAAAATGATTAAAAACAAAATCTCA 3 110 1 TCACGGATGAGCATTTTGAAAATTCT 4 204 1 ATTTTTTAAAAATTTCTCCTGG 6 0 1 AGGTAAAAATGTATATAGCAAAACAGTTGCTA 7 15 0 TGGGACTTTGACAGTTTAAAAACCATATGTTA 8 111 1 GTTAGATTAAGGTTGTTAAAAACATTAAATTT 8 139 1 TCCAAATGATGCTGGTAAAAAACAGATTTTCC 9 72 0 AATTCATGGAGGAGGTTGCAAAAC 10 2 0 AGGACATTCTGCATAATAAAAAATCTAAGGAG 10 199 1 * ** ******* MAP Score: 7.18088 Motif 6 AAAATACGACAAAAACATTTTGAAAATAAGCA 0 68 1 TAAGATTTATAAAAACCTCATGTTCTGGGTCA 0 101 1 GTTCTGGGTCAAAAGCAATTTGCAGGTTTTCT 0 122 1 ACCAAACAGCCGGCTGACCAGGCTGT 1 4 1 TGCGCAGCAAAAAAACAGCCTGGTCAGCCGGC 1 18 0 CTCCTTCCCATATATCCTTTTGTTTAATTGTA 1 130 0 TCGTACAAAAATCAGCCCGTTGTATGAAAAAG 3 50 1 GATTTTGTTTTTAATCATTTTGTCAGAGTATT 3 107 0 AAAAGAAAGGAACATCCATTTGAACGAACAAG 4 124 1 CATATCACGGATGAGCATTTTGAAAATTCT 4 200 1 AATGAAGAAAATGAACAGTATGACATATCCGG 5 96 1 TTGACAGTTTAAAAACCATATGTTAGATTAAG 8 118 1 AAAAAGGGGAAATAGCCGTTTGGCTGCTTCCC 9 10 1 CCTTGCAAAATAAAACCATCTGGTATGCTGAT 10 137 1 ** **** **** MAP Score: 6.90199 Motif 7 TTTTATAAATCTTACTGCTTATTTTCAAAATGT 0 82 0 ATGTTGATCACATCCTCGCTTTTTATTTTGGGG 0 161 0 GCCGGCTGACCAGGCTGTTTTTTTGCTGCGCAG 1 18 1 AAGATATTGACTTATTGTTTATTTGTCTTACAA 1 102 1 CAACATAACCTCCTGTTATTTGTGTATACGG 1 205 0 TTTCATACAACGGGCTGATTTTTGTACGAAACG 3 46 0 TAGTGAGCTTCTTTCTCATTATTTCTTTTTCAT 3 73 0 AGTTTTTGAGAGGTCTGTTTTTTGCTCGTATTT 4 17 1 CGATGGTAGACCGCTTCTATTTTAATGAAGAAA 5 73 1 TCATACTGTTCATTTTCTTCATTAAAATAGAAG 5 86 0 TTGCTATATACATTTTTACCTTTTAAGAGGAGG 7 26 1 ACTGACCCTCTTTTCCTTTAGAAA 8 1 1 TTTGATTTTTCTTTTTGACTTTTCCTCATGTTT 8 77 0 GTCAAAGTCCCATTTTGATTTTTCTTTTTGACT 8 90 0 AGCCGTTTGGCTGCTTCCCTTTTTCTTTTTTGT 9 23 1 TTACAATGGAAAATCTGTTTTTTACCAGCATCA 9 65 1 TAAATGTTGTCTTCCTGCATTTTATCAAATTCC 11 29 1 * * *** ***** MAP Score: 5.95064 Motif 8 CTCACTATAATACTCTGACAAAATGATTAAAA 3 99 1 GTTTGTTATTTTTTCTGACAAACCTTGCGCGA 11 82 1 AGCGGATGCCGATTGTGACAAACGCCTATCAT 3 245 0 TGGTGATTTATTATGTGAAAAATCTCTTCTGC 11 121 0 AATCAGCCCGTTGTATGAAAAAGAAATAATGA 3 59 1 CATTAAATTTTTATTTAACAAACTTTATTTAC 8 161 1 CATTGTAACATAAGTTGACAAAAAAGAAAAAG 9 41 0 AACAGTTATAGATTGTGACATATTGGAGAATC 10 39 1 TTTTGTTTAATTGTAAGACAAATAAACAATAA 1 113 0 TTTTCAGCAGGAATTTGATAAAATGCAGGAAG 11 39 0 TTTTCTGATATTTTATAAAAAAGCGGTAAATC 1 68 0 TTAACAACCTTAATCTAACATATGGTTTTTAA 8 126 0 AGAAAATGAACAGTATGACATATCCGGCTATG 5 101 1 ** * ******* MAP Score: 5.84798 Motif 9 TGTTCTGGGTCAAAAGCAATTTGCAGGTTT 0 121 1 TTATCCCCTCAATGAAGAATTCCGGGTCAG 0 278 1 TTGTAAGACAAATAAACAATAAGTCAATAT 1 105 0 AGCGGATGTGAAAGAAAAATTAATAAAAGC 1 160 1 AAAAACACGAAAGGGGCAATGGGC 2 15 1 CCGTTGTATGAAAAAGAAATAATGAGAAAG 3 66 1 AAAAAGAAATAATGAGAAAGAAGCTCACTA 3 76 1 CCGTGAATACAATAAGAAATAAAGTATTTC 3 161 1 TTTCGGGAACAATAAGGAATCCTGCGCTTT 3 196 0 TTGTTCCCGAAAAAAGCAATTGTTTCGACA 3 214 1 GCCCAATATGCAAAAGAAAGGAACATCCAT 4 113 1 AGAAACGATTCAGGAGAAAGCCATTTTAGT 4 154 1 CTTCTATTTTAATGAAGAAAATGAACAGTA 5 86 1 CTATGTCCAAGAAGAGCAAAGTATCATCGG 5 128 1 ACATCAAATCCAGGAGAAATTTTTAAAAAA 6 11 0 AAGTTAAGAAAAGGAGGAAATTGAG 6 95 1 TACCTTTTAAGAGGAGGAATTTTACCAA 7 42 1 AGATAAAGAACATAAAGAAATAACTTAACG 8 42 0 CTTAACGAAACATGAGGAAAAGTCAAAAAG 8 70 1 AGGAAAAGTCAAAAAGAAAAATCAAAATGG 8 84 1 AAAAAGGGGAAATAGCCGTTTG 9 2 1 AGTTGACAAAAAAGAAAAAGGGAAGCAGCC 9 31 0 CTTATGTTACAATGGAAAATCTGTTTTTTA 9 59 1 TCTGCGTTTTCAGCAGGAATTTGATAAAAT 11 47 0 CAAGGTTTGTCAGAAAAAATAACAAACTCA 11 79 0 TACCTTACAAAAAGGAGAAACGGA 11 153 1 ********** MAP Score: 5.77893 Motif 10 AAACATTTTGAAAATAAGCAGTAAGATTTATAAAAACCT 0 80 1 GTTCTGGGTCAAAAGCAATTTGCAGGTTTTCTCCCGATT 0 122 1 CCGATTCCCCAAAATAAAAAGCGAGGATGTGATCAACAT 0 155 1 GGTTTATTGAAAAAGACGGATATATACTGGCCCTCATGC 0 205 1 AAAATATCAGAAAATAAAGATATTGACTTATTGTTTATT 1 86 1 ATGTGAAAGAAAAATTAATAAAAGCGCTTACAGATAGAG 1 165 1 CGTTGTATGAAAAAGAAATAATGAGAAAGAAGCTCACTA 3 67 1 AAAATGATTAAAAACAAAATCTCATGGTTTGTCCACCCC 3 118 1 TTTAATGAAGAAAATGAACAGTATGACATATCCGGCTAT 5 93 1 AGGAAAAGTCAAAAAGAAAAATCAAAATGGGACTTTGAC 8 84 1 TTGACAGTTTAAAAACCATATGTTAGATTAAGGTTGTTA 8 118 1 AAGTTGACAAAAAAGAAAAAGGGAAGCAGCCAAACGGCT 9 23 0 ATTCCTGCTGAAAACGCAGATATGAGTTTGTTATTTTTT 11 57 1 **** ** * * ** MAP Score: 5.3369 Motif 11 TACAAAATACGACAAAAACATTTTGAAAATAAG 0 65 1 AAACATTTTGAAAATAAGCAGTAAGATTTATAA 0 80 1 TAAGATTTATAAAAACCTCATGTTCTGGGTCAA 0 101 1 AAAATATCAGAAAATAAAGATATTGACTTATTG 1 86 1 CTTACAATTAAACAAAAGGATATATGGGAAGGA 1 128 1 AAGAAAAATTAATAAAAGCGCTTACAGATAGAG 1 171 1 CGTATACACAAATAACAGGAGGTTATGTTG 1 206 1 AAGAAAAACACTTCAGGTATCTT 3 0 1 AGCCCGTTGTATGAAAAAGAAATAATGAGAAAG 3 63 1 ATAATACTCTGACAAAATGATTAAAAACAAAAT 3 105 1 TATTGTTCCCGAAAAAAGCAATTGTTTCGACAC 3 212 1 AAATACGAGCAAAAAACAGACCTCTCAAAAACT 4 17 0 CTGACATCCGACTAAAATGGCTTTCTCCTGAAT 4 161 0 TATTTTAATGAAGAAAATGAACAGTATGACATA 5 90 1 AAACTAAGTTAAGAAAAGGAGGAAATTGAG 6 90 1 TAAGATAAAGAACATAAAGAAATAACTTAACGA 8 41 0 ATGAGGAAAAGTCAAAAAGAAAAATCAAAATGG 8 81 1 GTTGACAAAAAAGAAAAAGGGAAGCAGCCAAAC 9 27 0 TGATGCTGGTAAAAAACAGATTTTCCATTGTAA 9 65 0 CAGAAAAAATAACAAACTCATATCTGCGTTTTC 11 66 0 ACCATACCTTACAAAAAGGAGAAACGGA 11 149 1 ** ******* * MAP Score: 3.18115 Motif 12 AAAATACGACAAAAACATTTTGAAAATAAGCAGTAAGATTTAT 0 68 1 GTTCTGGGTCAAAAGCAATTTGCAGGTTTTCTCCCGATTCCCC 0 122 1 TTTTTTATAAAATATCAGAAAATAAAGATATTGACTTATTGTT 1 78 1 ACAATTAAACAAAAGGATATATGGGAAGGAGCGGATGTGAAAG 1 131 1 ATGTGAAAGAAAAATTAATAAAAGCGCTTACAGATAGAGGCCG 1 165 1 CCAGAAAAAACACGAAAGGGGCAATGGGC 2 5 1 AAGAAAAACACTTCAGGTATCTTAGGGCGGGTAATA 3 3 1 CCGTTGTATGAAAAAGAAATAATGAGAAAGAAGCTCACTATAA 3 66 1 CCGTGAATACAATAAGAAATAAAGTATTTCTCGGGAAAGCGCA 3 161 1 TGTTCCCGAAAAAAGCAATTGTTTCGACACATGATAGGCGTTT 3 215 1 CATCCGCTTGAATATCATATAGAGAGAACAGAGAGGTGAAG 3 269 1 CTTGCAAAATAAAACCATCTGGTATGCTGATCGGTGAGAGCTG 10 138 1 **** ** * * * * MAP Score: 2.86521 Motif 13 AACATTTTGAAAATAAGCAGTAAGATTTATAAA 0 81 1 CGATTCCCCAAAATAAAAAGCGAGGATGTGATC 0 156 1 ATTGTAAGACAAATAAACAATAAGTCAATATCT 1 103 0 AGCGGATGTGAAAGAAAAATTAATAAAAGCGCT 1 160 1 CCAGAAAAAACACGAAAGGGGCAATG 2 3 1 CCCGTTGTATGAAAAAGAAATAATGAGAAAGAA 3 65 1 TCCGTGAATACAATAAGAAATAAAGTATTTCTC 3 160 1 GCCCAATATGCAAAAGAAAGGAACATCCATTTG 4 113 1 CCATTTGAACGAACAAGAAACGATTCAGGAGAA 4 139 1 GAGGAAAAGTCAAAAAGAAAAATCAAAATGGGA 8 83 1 AGTTGACAAAAAAGAAAAAGGGAAGCAGCCAAA 9 28 0 AGGTTTGTCAGAAAAAATAACAAACTCATATCT 11 74 0 CCATACCTTACAAAAAGGAGAAACGGA 11 150 1 *** ***** ** MAP Score: 2.42535