AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_sum_all083_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944234461 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 yfmA 40 yfmA #1 yflT 35 yflT #2 pel 190 pectate lyase #3 yflS 126 similar to 2-oxoglutarate/malate translocator #4 citS 126 two-component sensor histidine kinase #5 yflP 182 yflP #6 citM 195 secondary transporter of the Mg2+/citrate complex #7 yflN 55 yflN #8 pksA 120 transcriptional regulator #9 pksB 189 pksB #10 yobT 76 similar to hypothetical proteins #11 yobU 53 yobU #12 yobV 205 similar to hypothetical proteins #13 yqgX 157 similar to hypothetical proteins #14 yrkH 128 similar to hypothetical proteins #15 yrkG 300 yrkG #16 yybB 146 similar to hypothetical proteins #17 yybA 119 similar to transcriptional regulator (MarR family) Motif 1 CCGACATTGGCCTTTTGGTTTTTTCCTTGCT 2 7 0 CCAATGTCGGCCTTTTGGTTTTTTTGCGGTCTTT 2 31 1 AGGGTGCTAACCTTTGTGTTTTTTAATTAATTAA 3 27 1 AAAACTAACACCATTAGTTTTTGTTAGGAGGAAT 10 46 1 CAGGGGTTTCCCCTTCTTTTTTGTGTTCAGTATT 12 72 0 ATAAAAATTGCCCTCTCATTTTTTTCTTGTTACA 8 88 1 CTATGTACCCCCATTTTCTATTTTGTGAGATTTT 2 163 0 ACGCGGTCTGCCTTTTTTTATTTTCACTCCTTCG 4 24 1 TTTTTTAAAACCGTTTTGTTCTTTTTGATCAATT 6 44 0 AAGGTTAGCACCCTTTGTGTTTTTCACTTTC 3 7 0 TATTATCACCTCTTTCTTTTTTATGCTCTTAT 13 135 0 TAAATGAATCCGCTTACATTTTTTTCTCCCTTAC 6 158 0 CGATATTCCTCCTTCATGTTTTCTATATTTCTT 1 9 0 GTAGGCGGGGCTGTTACCTTTTTTGGTTTTACGA 15 211 1 TCCTAAAACCCCTCACGTATTTTTGTTGCAATT 17 96 0 TGAAAATAGTCCGTTCACTTCTGTTTTCTTTAAA 16 89 1 TAATATGTTACCATCTTTGTTTTTGTAACACAAC 8 48 1 TCTGCGCACCTTTTCTTCTTGTATTTTCCAAC 12 183 0 CCAAAAGAGTCGCTTTTTTATTTTCAAAGAACAA 9 48 1 TCCATTCCCCTCTTTTCAATACAGT 8 1 1 TTAACTAACACCATTAGTTTTTCAAGAGTTTA 10 8 0 ACGATCTCCTCCTTTTTTTAAGATTATAG 11 34 0 ATCTATAATCCTATTGAATATTCTATTGATCTTT 5 20 1 TTTTCCGATCCCCTTTTCCATTCTACTCCTTAAC 3 77 0 ** ** ****** MAP Score: 36.9567 Motif 2 ACGCGGTCTGCCTTTTTTTATTTTCACTCCTT 4 24 1 CCCTTACTCCCCTTTTTGTCTTGCCTTTTTGC 6 133 0 TCCATTCCCCTCTTTTCAATACAGTTGTAT 8 8 1 TTTTATTCTACCTGTTTTTTATAGGTTTGTCG 13 53 1 TTTTGTCTTGCCTTTTTGCCATCGTATGGGAA 6 120 0 ACTATGTACCCCCATTTTCTATTTTGTGAGAT 2 166 0 GTTTTCCGATCCCCTTTTCCATTCTACTCCTT 3 80 0 CCGACATTGGCCTTTTGGTTTTTTCCTTGCT 2 9 0 CCAATGTCGGCCTTTTGGTTTTTTTGCGGTCT 2 31 1 TCTGCGCACCTTTTCTTCTTGTATTTTCCA 12 185 0 AAACCCCTCACGTATTTTTGTTGCAATTACAA 17 92 0 ATTGCCCTCTCATTTTTTTCTTGTTACAATAA 8 94 1 GGGGCTGTTACCTTTTTTGGTTTTACGAAAGA 15 217 1 TATTATCACCTCTTTCTTTTTTATGCTCTT 13 137 0 TCTGCGACATGCTCTTTTCCTTGTCGCAATAT 15 53 0 ACAGGGGTTTCCCCTTCTTTTTTGTGTTCAGT 12 75 0 CCAAAAGAGTCGCTTTTTTATTTTCAAAGAAC 9 48 1 AATATGTTACCATCTTTGTTTTTGTAACACAA 8 49 1 GAATAGAAGGCACATTTGCGTTCCTACAACCT 15 85 0 GACCGCGTCTGCCTTTTTCTTT 4 0 0 AACACAGCCCCCTTTACATTGAAAAACCTG 13 8 1 AGGGTGCTAACCTTTGTGTTTTTTAATTAATT 3 27 1 AGGTTAGCACCCTTTGTGTTTTTCACTTTC 3 8 0 ATTCCTCCTTCATGTTTTCTATATTTCTT 1 7 0 TTTTTAAAACCGTTTTGTTCTTTTTGATCAAT 6 45 0 TCCGTTCACTTCTGTTTTCTTTAAAACTATCA 16 98 1 AGGGGAAACCCCTGTTTTCATAGCATATGCGA 12 92 1 ACGATCTCCTCCTTTTTTTAAGATTATAG 11 34 0 *** ***** ** MAP Score: 28.0657 Motif 3 CGATATTCCTCCTTCATGTTTTCTATATTTCT 1 11 0 CCGACATTGGCCTTTTGGTTTTTTCCTTGCT 2 9 0 CCAATGTCGGCCTTTTGGTTTTTTTGCGGTCT 2 31 1 CCTCAATTTGCTATTATATTTTTGTGATAAAT 2 125 1 GGTTAGCACCCTTTGTGTTTTTCACTTTC 3 7 0 GGGTGCTAACCTTTGTGTTTTTTAATTAATTA 3 28 1 GCGGTCTGCCTTTTTTTATTTTCACTCCTTCG 4 26 1 TCACAGGGAATTTTCTCATTTTTCAAAATCCA 4 66 0 TCTACCTAGATCATACCATTTTTCACAGGGAA 4 88 0 TTTAAAACCGTTTTGTTCTTTTTGATCAATTT 6 43 0 TTTTTTGTATTTTTAATTTTTTAAAACCGTTT 6 62 0 CCCCTTTTTGTCTTGCCTTTTTGCCATCGTAT 6 125 0 ATAAAAATTGCCCTCTCATTTTTTTCTTGTTA 8 88 1 AAAAGAGTCGCTTTTTTATTTTCAAAGAACAA 9 50 1 ACGATCTCCTCCTTTTTTTAAGATTATA 11 35 0 CAGGGGTTTCCCCTTCTTTTTTGTGTTCAGTA 12 74 0 GCGCACCTTTTCTTCTTGTATTTTCCAACAAA 12 180 0 TCCAGTTTTATTCTACCTGTTTTTTATAGGTT 13 48 1 ATTGCGATTGTTTGAATCTTTTTTCAAAAACC 13 97 1 TATTATCACCTCTTTCTTTTTTATGCTCTTAT 13 135 0 ATGTTCCTTATTTTGATCTTTTAGATGGCGTA 14 34 1 GGGCTGTTACCTTTTTTGGTTTTACGAAAGAT 15 218 1 GCTGATGTATCCTTAACGTTTTAGTCCCGCTA 15 250 1 TGTGGAAATTTTTTGATAGTTTTAAAGAAAAC 16 111 0 TCCTAAAACCCCTCACGTATTTTTGTTGCAA 17 98 0 **** ** **** MAP Score: 11.3465 Motif 4 AGAAAACATGAAGGAGGAATATCGAC 1 19 1 TTTTTGTGATAAATTGGAATAAAATCTCAC 2 143 1 ACAAAATAGAAAATGGGGGTACATAGTGG 2 171 1 TGAAAAACACAAAGGGTGCTAACCTTTGTG 3 15 1 AGTAGAATGGAAAAGGGGATCGGAAAACAA 3 84 1 GGCAAGACAAAAAGGGGAGTAAGGGAGAAA 6 140 1 GGATTCATTTAAGGGGGAATGGAT 6 181 1 TGTATTGAAAAGAGGGGAATGGA 8 3 0 GCTGTTTGGTAAAGTGGAATGAAAGACGGA 9 112 1 TTTTCAATGTAAAGGGGGCTGTGTT 13 5 0 TAACTGATTGAAATGGGAGTTGCATGATTT 15 118 1 ********** MAP Score: 7.98016 Motif 5 GATCTAGGTAGAAAGGACGGCTGGTGCT 4 108 1 ATATCAGGCAGGCGGCTGCGCCGCGCCTGCCGG 5 64 1 CGCCGCGCCTGCCGGACGGGCCGATAGAAATTG 5 82 1 CGCCAGAAGGTTCGGCAGGGACGACAATTTCTA 5 106 0 CGAACCTTCTGGCGGCTGGGATGTCACAGCGCA 5 125 1 GCGGATTCATTTAAGGGGGAATGGAT 6 179 1 AAAGTGGAATGAAAGACGGACTGAGGGGTGAAC 9 122 1 GTTTTTCAATGTAAAGGGGGCTGTGTT 13 4 0 TTCCTTCTGATAAAGAAGTGCTGGTCGTTTGCG 14 85 1 AGGAATCGAAGTAGGCGGGGCTGTTACCTTTTT 15 201 1 * *** ****** MAP Score: 4.83813 Motif 6 GCTCGTACGGATAAAGGCAGCGTTTC 0 24 1 AAATATAGAAAACATGAAGGAGGAATATCGAC 1 13 1 CACAAAATAGAAAATGGGGGTACATAGTGG 2 170 1 AGTAGAATGGAAAAGGGGATCGGAAAACAAGT 3 84 1 GAAAACAAGTATATAGGAGGAGACCTATTT 3 106 1 AGGCAAGACAAAAAGGGGAGTAAGGGAGAAAA 6 139 1 AAGGGAGAAAAAAATGTAAGCGGATTCATTTA 6 160 1 CTGTATTGAAAAGAGGGGAATGGA 8 2 0 TAACAAGAAAAAAATGAGAGGGCAATTTTTAT 8 88 0 ATAATCTTAAAAAAAGGAGGAGATCGT 11 36 1 TACTGAACACAAAAAAGAAGGGGAAACCCCTG 12 74 1 TAAGAGCATAAAAAAGAAAGAGGTGATAATA 13 136 1 TAACTGATTGAAATGGGAGTTGCATGATTTGG 15 118 1 GAAGGAATCGAAGTAGGCGGGGCTGTTACCTT 15 199 1 AAAAGATTTGATATAGGAGGTATTGAAAC 15 281 1 AGTTTTAAAGAAAACAGAAGTGAACGGACTAT 16 94 0 **** ***** * MAP Score: 2.99548 Motif 7 GTCGGCCTTTTGGTTTTTTTGCGGTCTTTGCGG 2 36 1 AGGTTAGCACCCTTTGTGTTTTTCACTTTC 3 7 0 AGGGTGCTAACCTTTGTGTTTTTTAATTAATTA 3 27 1 AGACGCGGTCTGCCTTTTTTTATTTTCACTCCT 4 22 1 TATGTTACCATCTTTGTTTTTGTAACACAACTG 8 51 1 AATTGCCCTCTCATTTTTTTCTTGTTACAATAA 8 93 1 TCCAAAAGAGTCGCTTTTTTATTTTCAAAGAAC 9 47 1 TGATTGTTTTCCATTTTTTTCAGAGATCCTTGT 9 78 0 ACGATCTCCTCCTTTTTTTAAGATTATAGACA 11 31 0 AGGGGTTTCCCCTTCTTTTTTGTGTTCAGTATT 12 72 0 GAAGGGGAAACCCCTGTTTTCATAGCATATGCG 12 90 1 CAAAATGTTATGATTGTTTTGTTGGAAAATACA 12 163 1 TTTTATTCTACCTGTTTTTTATAGGTTTGTCGA 13 53 1 TATTATCACCTCTTTCTTTTTTATGCTCTTA 13 136 0 ATTTGAATGTTCCTTATTTTGATCTTTTAGATG 14 28 1 GCGGGGCTGTTACCTTTTTTGGTTTTACGAAAG 15 215 1 AGTCCGTTCACTTCTGTTTTCTTTAAAACTATC 16 96 1 ** ******* * MAP Score: 1.88227 Motif 8 TAGACATACCTCCTGCTCGTACGG 0 4 1 GTCGATATTCCTCCTTCATGTTTTC 1 20 0 TTTTTTTCTCCCTTACTCCCCTTTTTGTCT 6 144 0 ATCCATTCCCCCTTAAATGAATC 6 182 0 TAGTGTGTGTCATTACGCCTGAATTA 7 6 0 TCCATTCCCCTCTTTTCAATAC 8 2 1 GTTCACCCCTCAGTCCGTCTTTCATTCCAC 9 125 0 CTTTTTATTCCTCCTAACAAAAACT 10 61 0 ATGCGAGGTGTATTCCGCCGCATAATAGAT 12 118 1 TCTTGGAGAAAATTCCTTCTGATAAAGAAG 14 73 1 CGCCTACTTCGATTCCTTCCATAAAATCAT 15 188 0 GTTTCAATACCTCCTATATCAAATC 15 285 0 ********** MAP Score: 1.42185 Motif 9 TTTGGTTTTTTTGCGGTCTTTGCGGTGGGATTTT 2 44 1 AAAAAGGCAGACGCGGTCTGCCTTTTTTTATTTT 4 14 1 GATATCAGGCAGGCGGCTGCGCCGCGCCTGCCGG 5 63 1 GCGCCGCGCCTGCCGGACGGGCCGATAGAAATTG 5 81 1 CCGAACCTTCTGGCGGCTGGGATGTCACAGCGCA 5 124 1 AATTATTTACTTGCGGTTGGTTTTCCCATACGAT 6 98 1 AAAAAAATGTAAGCGGATTCATTTAAGGGGGAAT 6 167 1 TTTCAATGTAAAGGGGGCTGTGTT 13 0 0 GGTTTGTCGATAGCGGTTTTCATTGCGATTGTTT 13 76 1 TTGCGGCAAATAGCGGTCTGTTTGATGCTTATAA 15 11 1 * **** *** ** MAP Score: 1.06442 Motif 10 CAAGGAAAAAACCAAAAGGCCAATGTCGGCCTTTTGGT 2 12 1 TATCACAAAAATATAATAGCAAATTGAGGGACATTCAG 2 116 0 ATAAAATCTCACAAAATAGAAAATGGGGGTACATAGTG 2 161 1 GAAAGTGAAAAACACAAAGGGTGCTAACCTTTG 3 5 1 TTAGTTAAGGAGTAGAATGGAAAAGGGGATCGGAAAAC 3 74 1 AAAGAAAAAGGCAGACGCGGTCTGCCTTTT 4 2 1 GATGGCAAAAAGGCAAGACAAAAAGGGGAGTAAGGGAG 6 129 1 AGTAAGGGAGAAAAAAATGTAAGCGGATTCATTTAAGG 6 157 1 TTGTTGGAAAATACAAGAAGAAAAGGTGCGCAGA 12 181 1 TAATAAGAGCATAAAAAAGAAAGAGGTGATAATA 13 133 1 TTCTATTCTTAACTGATTGAAATGGGAGTTGCATGATT 15 109 1 GATTTTATGGAAGGAATCGAAGTAGGCGGGGCTGTTAC 15 190 1 TAAAACTATCAAAAAATTTCCACAGGAGATGGTTTGC 16 119 1 * * ** * ** ** * MAP Score: 0.726216