AlignACE 3.0 10/20/99 AlignACE2 -i PA/PA_operons009_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944249439 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 PAB0085 251 hypothetical protein #1 rimK 206 PAB0290 #2 tkt1 300 PAB0295 #3 tmpC-like 43 PAB0302 #4 rbsA 44 PAB0303 #5 aroA 28 PAB0306 #6 PAB1921 106 PAB1921 #7 PAB1897 101 PAB1897 #8 trxB 180 PAB0500 #9 gabT 95 PAB0501 #10 PAB2386 39 PAB2386 #11 PAB1527 134 PAB1527 #12 PAB1244 165 PAB1244 Motif 1 AGATCTCCTTTCTTCTTCCTTCAATTTTATT 0 30 1 CTTCCTTCAATTTTATTGCTTATAACTTATA 0 44 1 TCATGTATAATTTGCTACCTTATTTAAAAAT 0 166 1 GCACACGGGGCATTCTACCTTAACCATACTT 1 12 0 CAGCTCTACACTTTCAAGCTCGATCTCAGCT 1 45 0 GCCCCAGTCCTCCTCTACCTCAGGAACCTCC 1 147 0 CTGTGCTTACCATTTATGCTCTTTAGTATAA 2 103 0 CCACTATCAACATTAAAGCTCAACGCTAGGA 2 180 1 AGTTTTTAACCTTCTCTCTTTTT 4 2 1 CTCCAAACCTCCTCAACCTTTGGTTTGAAA 8 9 1 TAAAAGAGTTTTTTAAAGCTTAGAATTGAAA 8 95 1 AAAATAAAAGTGTTCAACCTTTGGTTTACTA 8 123 1 CCTCTCTTCTTCCTTGAAAATTTTT 9 4 1 CATGCAACTACATTCAAGCTCAGCATAACTT 12 68 0 AGTGCAAATCTTTTATACCTCAATGCCCAAA 12 136 1 * ********* MAP Score: 12.5492 Motif 2 AATCCGCTAGTGCTCGAGGAGGTTCCTGAGGTA 1 130 1 TTCAAACCAAAGGTTGAGGAGGTTTGGAG 8 6 0 AACGCTAGGATCCTAAAGGAGCTGGGTCTAATA 2 201 1 GAGGTTCCTGAGGTAGAGGAGGACTGGGGCGAG 1 148 1 TTGAAAAAATTATTGAAGGTGTTTGATAATTAG 6 66 1 CTTTTTCTACTCTCCAAGGTGCTCCAG 4 27 1 CTTTTCCCTTTTATGGAGGTGATATT 10 23 1 GGTGAATTCAAGGTGATGCCCTACCAA 2 4 1 TCCCTCCAAAAAATTAAAGTGGAGGGGCTACTC 1 178 0 TAACTGGTCAAAACTGAGGTGCATGCAACTACA 12 87 0 ATATGTCAATTTGTCAAAGTGCAAATCTTTTAT 12 119 1 TGAAGTATGGTTAAGGTAGAATGCCCCGTG 1 7 1 TGCGGTGCCGAGCTTGAGGTAGTCAGCTTGAAT 1 100 1 GATCGAAAAATTTTCAAGGAAGAAGAGAGG 9 7 0 TAAGCAATAAAATTGAAGGAAGAAGAAAGGAGA 0 33 0 AAATCCTATTTTACCAAGGTGAACGCT 3 26 1 TTAGAATTGAAAATAAAAGTGTTCAACCTTTGG 8 114 1 AGCGTAGAAATCTTAAAAGAGTTTTTTAAAGCT 8 82 1 CTAAACGCTCTACTGGAAGAGTTAAGCCGCAAG 2 138 1 CCAAATACTTATACTAAAGAGCATAAATGGTAA 2 95 1 TTCAATAATTTTTTCAAAGAATTTTTGATAAAT 6 50 0 * * ******** MAP Score: 10.979 Motif 3 TCTCAGATCTCCTTTCTTCTTCCTTCAATTTTAT 0 26 1 GCGAGTAGCCCCTCCACTTTAATTTTTTGGAGGG 1 176 1 AGTTTTTAACCTTCTCTCTTTTTCTACTCTCCA 4 9 1 AACGTTCCACCTAACATCTAATTATCAAACACC 6 83 0 GCTCCCACCTCTATTCTATTTCCATGAGAGC 7 80 0 CATTTTACTTCCTTATTTTTTTCTCTCCAAAGAT 8 43 1 CCTCTCTTCTTCCTTGAAAATTTT 9 0 1 ATAGTAATCCCCCGAGTTTTTTCTTGGTGGTTGA 9 70 1 CGCCTTTTCTCTTCTTTTCCCTTTTA 10 2 1 CTCACATCCCCTCTTCCTATCCTGGGAA 12 4 1 *** ***** ** MAP Score: 9.60902 Motif 4 ATAAGCAATAAAATTGAAGGAAGAAGAAAGGAGAT 0 32 0 ATTATTATAAAACTTTAAGTAGTAATGCTAAAAAG 0 97 1 GTAATGCTAAAAAGTTATGGAAAAATGTCTCTTTT 0 118 1 ATATATTGGCAAGTTTATGTAGGAAATCTTAATAT 0 203 1 CCTCCACTTTAATTTTTTGGAGGGATAGAG 1 186 1 CTAAACCCGTAACCCTAACTAGGGAAGGCAAGTTC 2 256 1 CCTCCAGAATGCTGAGAATGAACTTGCCTTCC 2 278 0 CACCTTCAATAATTTTTTCAAAGAATTTTTGATAA 6 52 0 TTTTCTTAAAAAAGCTCTCATGGAAATAGAATAGA 7 67 1 AGAGTTTTTTAAAGCTTAGAATTGAAAATAAAAGT 8 99 1 CCTTGATCGAAAAATTTTCAAGGAAGAAGAGAGG 9 9 0 ATTACTATTTAACTTTAAGTTCGAAAATGAACATC 9 43 0 AGGCATTAAAAAGTTTTACAATTGACAAAAAACTT 11 24 1 GAATAGATAAAAATTTTTGCATTGAGACAATCCAA 12 35 1 ** ** ** * *** MAP Score: 9.01896 Motif 5 ATATTGGCAAGTTTATGTAGGAAATCTTAATA 0 205 1 TGAAGTATGGTTAAGGTAGAATGCCCCGTG 1 8 1 GCGGTGCCGAGCTTGAGGTAGTCAGCTTGAAT 1 101 1 ATCCGCTAGTGCTCGAGGAGGTTCCTGAGGTA 1 131 1 AGGTTCCTGAGGTAGAGGAGGACTGGGGCGAG 1 149 1 TCCACTTTAATTTTTTGGAGGGATAGAG 1 188 1 CTCATTCAAGGCTCTAAGAAGAAGTCTCTTAA 2 61 0 CCCTAAACGCTCTACTGGAAGAGTTAAGCCGC 2 136 1 TAGGGTTACGGGTTTAGGAGCTTCCCTTGTTC 2 241 0 TCAAACCAAAGGTTGAGGAGGTTTGGAG 8 6 0 ATCGAAAAATTTTCAAGGAAGAAGAGAGG 9 7 0 AAAATTTTTCGATCAAGGATGTTCATTTTCGA 9 26 1 CCCCGAGTTTTTTCTTGGTGGTTGAT 9 79 1 TTCTTTTCCCTTTTATGGAGGTGATATT 10 21 1 ATCAAAATTAGTTCAAGTAAGTCTTAAATAGT 11 66 1 * ** ******* MAP Score: 8.48282 Motif 6 TCCGCTAGTGCTCGAGGAGGTTCCTGAGGTAG 1 132 1 AGAACTTTCACTCCAGGATTTTCCATTGGTAG 2 30 0 GAAGAAGTCTCTTAAGAACTTTCACTCCAGGA 2 44 0 TTTGGTTCTCATTCAAGGCTCTAAGAAGAAGT 2 68 0 CCAGTAGAGCGTTTAGGGACCTGTGCTTACCA 2 122 0 GACCCAGCTCCTTTAGGATCCTAGCGTTGAGC 2 197 0 AGGGTTACGGGTTTAGGAGCTTCCCTTGTTCC 2 240 0 CCTCCAGAATGCTGAGAATGAAC 2 287 0 TTTTTCTACTCTCCAAGGTGCTCCAG 4 28 1 TTTGACATTTATCAAAAATTCTTTGAAAAAAT 6 44 1 TGAAAAAATTATTGAAGGTGTTTGATAATTAG 6 67 1 TTTCGATTTTCTTAAAAAAGCTCTCATGGAAA 7 61 1 CAAACCAAAGGTTGAGGAGGTTTGGAG 8 5 0 GCGTAGAAATCTTAAAAGAGTTTTTTAAAGCT 8 83 1 TCTCTTCTTCCTTGAAAATTTTTCGATCAAGG 9 12 1 AAATTTTTCGATCAAGGATGTTCATTTTCGAA 9 27 1 AAGGCAAGGCATTAAAAAGTTTTACAATTGAC 11 18 1 *** **** *** MAP Score: 7.37777 Motif 7 TCTACCTCAGGAACCTCCTCGAGCACTAGCGG 1 133 0 ACTGGGGCGAGTAGCCCCTCCACTTTAATTTT 1 170 1 CCTACCAATGGAAAATCCTGGAGTGAAAGTTC 2 29 1 TCTATTAGACCCAGCTCCTTTAGGATCCTAGC 2 204 0 TGGAACAAGGGAAGCTCCTAAACCCGTAACCC 2 239 1 TATAAGTGACCAAAATCCTATTTTACCAAGGT 3 14 1 ACTAACCTGGCAAAACCCTCTAAA 5 14 1 AAACGTTGTCCAAACCCCTTATAAGCGTATTT 6 15 1 ATCTAATTATCAAACACCTTCAATAATTTTTT 6 69 0 CTCCAAACCTCCTCAACCTTTGGTTT 8 4 1 GTGTATCACAAAAACCCCACAATAGTAAACCA 8 144 0 GTTCGAAAATGAACATCCTTGATCGAAAAATT 9 28 0 ATCAACCACCAAGAAAAAACTCGG 9 81 0 ********* * MAP Score: 6.67689 Motif 8 AATGCCCCGTGTGCGGAGCTGAGATCGAGCT 1 29 1 GAGCTTGAAAGTGTAGAGCTGCACCAGATAG 1 55 1 CCTGTTTGCGGTGCCGAGCTTGAGGTAGTCA 1 94 1 AGCACTAGCGGATTCAAGCTGACTACCTCAA 1 113 0 CCGCTAGTGCTCGAGGAGGTTCCTGAGGTAG 1 133 1 GCTAGGATCCTAAAGGAGCTGGGTCTAATAG 2 204 1 GGGTTACGGGTTTAGGAGCTTCCCTTGTTCC 2 240 0 AAATCCTATTTTACCAAGGTGAACGCT 3 26 1 AGTAGAAAAAGAGAGAAGGTTAAAAACT 4 7 0 CTTTTTCTACTCTCCAAGGTGCTCCAG 4 27 1 TTGAAAAAATTATTGAAGGTGTTTGATAATT 6 66 1 CATGGAAATAGAATAGAGGTGGGAGC 7 85 1 AAACCAAAGGTTGAGGAGGTTTGGAG 8 5 0 CTTTTCCCTTTTATGGAGGTGATATT 10 23 1 AGGATAGGAAGAGGGGATGTGAG 12 2 0 *** ******* MAP Score: 6.6484 Motif 9 TTAATTTTTTGGAGGGATAGAG 1 194 1 GGAAAATCCTGGAGTGAAAGTTCTTAAGAG 2 38 1 CGCTCTACTGGAAGAGTTAAGCCGCAAGGA 2 143 1 TAAGCCGCAAGGAGAGAAAACCACTATCAA 2 160 1 GAGTAGAAAAAGAGAGAAGGTTAAAAACT 4 9 0 GGAGCACCTTGGAGAGTAGAAAAAGAGAGA 4 22 0 TCTAATCTTTGGAGAGAAAAAAATAAGGAA 8 51 0 TTAAAGCTTAGAATTGAAAATAAAAGTGTT 8 107 1 AAAGGGAAAAGAAGAGAAAAGGCG 10 4 0 CACCTCCATAAAAGGGAAAAGAAGAGAAAA 10 14 0 TCTATTCCCAGGATAGGAAGAGGGGATGTG 12 12 0 CCTATCCTGGGAATAGATAAAAATTTTTGC 12 25 1 ********** MAP Score: 6.55369 Motif 10 GCAAGGCATTAAAAAGTTTTACAATTGACAAAA 11 21 1 AATTCTTTGAAAAAATTATTGAAGGTGTTTGAT 6 60 1 GGGAATAGATAAAAATTTTTGCATTGAGACAAT 12 33 1 GACATTTATCAAAAATTCTTTGAAAAAATTATT 6 47 1 CTAAGCTTTAAAAAACTCTTTTAAGATTTCTAC 8 85 0 CTTCTTCCTTGAAAATTTTTCGATCAAGGATGT 9 15 1 GAATTGAAAATAAAAGTGTTCAACCTTTGGTTT 8 117 1 TAGTAATGCTAAAAAGTTATGGAAAAATGTCTC 0 116 1 GCATTACTACTTAAAGTTTTATAATAATCTAGC 0 92 0 CATTGAGGTATAAAAGATTTGCACTTTGACAAA 12 128 0 ******* ** * MAP Score: 6.16697 Motif 11 AATTTTCAAGGAAGAAGAGAGG 9 2 0 CCCAGGATAGGAAGAGGGGATGTGAG 12 6 0 ATTGAAGGAAGAAGAAAGGAGATCTGAGAA 0 25 0 TTGGAGAGTAGAAAAAGAGAGAAGGTTAAA 4 14 0 ATAAAAGGGAAAAGAAGAGAAAAGGCG 10 7 0 ATAGAATATGGAACAAGGGAAGCTCCTAAA 2 231 1 AACTTAAAAATAAAAAGAGACATTTTTCCA 0 135 0 ********** MAP Score: 6.13236 Motif 12 AATAAAATTGAAGGAAGAAGAAAGGAGATCTGAG 0 27 0 ATGAAAACTTAAAAATAAAAAGAGACATTTTTCC 0 136 0 CTATCCCTCCAAAAAATTAAAGTGGAGGGGCTAC 1 180 0 GTTCTCATTCAAGGCTCTAAGAAGAAGTCTCTTA 2 62 0 TACTTATACTAAAGAGCATAAATGGTAAGCACAG 2 100 1 GTTAAGCCGCAAGGAGAGAAAACCACTATCAACA 2 158 1 AGCTCAACGCTAGGATCCTAAAGGAGCTGGGTCT 2 196 1 TGGAGAGTAGAAAAAGAGAGAAGGTTAAAAACT 4 9 0 AGAAAAAAATAAGGAAGTAAAATGCCGTTTCAAA 8 33 0 AAAAATTTTCAAGGAAGAAGAGAGG 9 1 0 TAAAAGGGAAAAGAAGAGAAAAGGCG 10 2 0 TCTTAAAGGCAAGGCATTAAAAAGTTTTACAATT 11 13 1 ***** **** * MAP Score: 5.8615 Motif 13 AGAATGCCCCGTGTGCGGAGCTGAGATCGAGCTTG 1 27 1 TGAATGTCCTGTTTGCGGTGCCGAGCTTGAGGTAG 1 87 1 ATCCGCTAGTGCTCGAGGAGGTTCCTGAGGTAGAG 1 131 1 AGGTTCCTGAGGTAGAGGAGGACTGGGGCGAGTAG 1 149 1 ACGCTAGGATCCTAAAGGAGCTGGGTCTAATAGAA 2 202 1 TAGGGTTACGGGTTTAGGAGCTTCCCTTGTTCCAT 2 238 0 TGATAATTAGATGTTAGGTGGAACGTT 6 89 1 ATGGAAATAGAATAGAGGTGGGAGC 7 86 1 TCAAACCAAAGGTTGAGGAGGTTTGGAG 8 3 0 AACTGGTCAAAACTGAGGTGCATGCAACTACATTC 12 84 0 * * ******* * MAP Score: 4.18954 Motif 14 TTATTATAAAACTTTAAGTAGTAATGCTAAAAAG 0 98 1 TTAAGTAGTAATGCTAAAAAGTTATGGAAAAATG 0 111 1 TGAAAACTTAAAAATAAAAAGAGACATTTTTCCA 0 135 0 TATATTGGCAAGTTTATGTAGGAAATCTTAATAT 0 204 1 TATACTAAAGAGCATAAATGGTAAGCACAGGTCC 2 104 1 TAAACCCGTAACCCTAACTAGGGAAGGCAAGTTC 2 257 1 TTCGAACTTAAAGTTAAATAGTAATCCCCCGAGT 9 53 1 TTCACCATTTATTATAATTAGTGAACTATTTAAG 11 88 0 TTCACTAATTATAATAAATGGTGAATTAATCCCT 11 97 1 GACAAATTGACATATAACTGGTCAAAACTGAGGT 12 100 0 * **** **** * MAP Score: 0.960931 Motif 15 TTATAAAACTTTAAGTAGTAATGCTAAAAAG 0 101 1 ATTGGCAAGTTTATGTAGGAAATCTTAATAT 0 207 1 ACTAAAGAGCATAAATGGTAAGCACAGGTCC 2 107 1 GAACTTAAAGTTAAATAGTAATCCCCCGAGT 9 56 1 TATCACCTCCATAAAAGGGAAAAGAAGAGAA 10 16 0 ACCATTTATTATAATTAGTGAACTATTTAAG 11 88 0 ACTAATTATAATAAATGGTGAATTAATCCCT 11 100 1 AAATTGACATATAACTGGTCAAAACTGAGGT 12 100 0 **** ****** MAP Score: 0.114708