AlignACE 3.0 10/20/99 AlignACE2 -i PH/PH_operons005_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944255430 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 PH0046 90 113aa long hypothetical protein #1 PH0047 40 122aa long hypothetical protein #2 PH0051 36 353aa long hypothetical dolichol-phosphate mannosyltransferase #3 PH0053 76 404aa long hypothetical protein #4 PH0054 37 328aa long hypothetical 1-aminocyclopropane-1-carboxylate deaminase #5 PH0061 72 151aa long hypothetical protein #6 PH0062 104 137aa long hypothetical protein #7 PH0140 60 158aa long hypothetical transcriptional regulator #8 PH0433 185 304aa long hypothetical protein #9 PHS023 128 75aa long hypothetical regulatory protein AsnC #10 PH1002 66 352aa long hypothetical protein #11 PH1014 60 181aa long hypothetical 3-octaprenyl-4-hydroxybenzoate carboxy-lyase #12 PH1055 149 162aa long hypothetical protein #13 PH1329 53 912aa long hypothetical ATP-dependent helicase #14 PH1519 136 151aa long hypothetical transcriptional regulator #15 PH1592 105 141aa long hypothetical transcriptional regulator #16 PH1596 272 215aa long hypothetical protein #17 PH1692 43 151aa long hypothetical transcriptional regulator #18 PH1694 31 445aa long hypothetical signal recognition particle protein #19 PH1898 57 267aa long hypothetical protein #20 PH1899 284 735aa long hypothetical elongation factor 2 #21 PH1916 32 150aa long hypothetical leucine-responsive regulatory protein #22 PH1918 57 162aa long hypothetical protein Motif 1 CAAAATATTTAAAGTTTTAAAAAAA 0 3 0 AAGACTAAAAAAGGTTTTCAAAATATTTAAAG 0 21 0 AAACATACGAAACGTTTTTATATATCTTCACA 5 36 1 CAGATGAAACAAATTTTTTATACTTTAAGTTC 6 71 1 CTTAAGGTTTTGAACTTAAAGTATA 6 89 0 AAGTCAACTAAACCTTTTTATCCCTTTCCCTT 8 23 0 TTTATCACAGAAGGTTTTAATTTATTCTACAG 8 53 1 ATTTAACGAGAAACTTTTAAAAGAGGGATTTT 8 99 1 AGCCAAAAGCAAGCTTTAAATACCTAAAGAAG 9 82 1 CTCCTCGCGAAAACTTTATAAACCCACATTTA 10 39 1 AAACCTTCTCAATGTTTATAAAGTTGCAATTT 11 20 0 TCCCCTCAGAAAATTTTTCAAAGAATAAAATA 14 108 0 TCTCTACAATAACTTTTTTATAGGGGATCGCA 19 14 1 ATCCCAGGAAAAGCTTTATAACCCTACTTTTT 20 236 1 ** ***** *** MAP Score: 16.1703 Motif 2 TATTTTCCCACCTACGAAACTTTAGTTACATACA 0 66 0 TTTATATCACCAAGGGATTTTTAAGCGGGGAAG 1 17 0 TAGTTGACTTTATCACAGAAGGTTTTAATTTATTCTA 8 45 1 TCTTAAAATCCCTCTTTTAAAAGTTTCTCGTTAAATC 8 98 0 AAAGAATTTACCTTCTTTAGGTATTTAAAGCTTGCTT 9 88 0 TCTTCATCACCAAAAAGAATTTACCTTCTTTAG 9 105 0 TGTTTAAAACTCCTCGCGAAAACTTTATAAACCCACA 10 30 1 ATACTGGACTTTACTCCCAAATTTTTAG 12 1 0 AACTCGGTACTCCTACGGAAAGAGTTATAAACTAACT 14 48 0 CTTTCCTCCCCTCAGAAAATTTTTCAAAGAATAAA 14 111 0 ACTGGCATTACCTTAACGAAATCTTTATCCGTTACCT 16 22 1 CCAACTCTCTTCTTTCCTGAAATTTTAACCTCAATCT 16 148 1 CATCTCCCCACCTCCGGAAGATATTTAACTACTTAAG 16 231 1 GAAATGCGATCCCCTATAAAAAAGTTATTGTAGAGAA 19 13 0 GAACTTCTAATCCCAGGAAAAGCTTTATAACCCTACT 20 227 1 GCGACCTCAGTAAAAAATTTATTACTACAGC 22 4 1 TTTATTACTACAGCCTAAAAACAGTTATGGTGGTTGG 22 27 1 ** * *** **** MAP Score: 15.7604 Motif 3 GTAACTAAAGTTTCGTAGGTGGGAAAATA 0 71 1 CCAAGGGATTTTTAAGCGGGGAAGTATTTAA 1 9 0 CCGCTTAAAAATCCCTTGGTGATATAAA 1 22 1 CTTTTCTATTTTATATTGGTGGTAAAATA 2 17 1 TTAGAGCTGAATGCAGTGGTAG 3 64 1 TATCTTCACATTTCTTAGGAGAGG 5 58 1 CTGTATATCTAGGTAAACATTTAGGG 7 44 0 TGGATGGAGATTAAGGAGGTGAAGGGTGA 9 7 0 TTTGAAAAATTTTCTGAGGGGAGGAAAG 14 118 1 TGTCAATCTTATACTTAGGTGGTTTGAAGA 15 85 1 GCTACAGAAGATGCGGAGGTAACGGATAAAGA 16 43 0 AGTTGGGGATATCCTTAGGGAAACTATACCTA 16 122 0 GTTAAATATCTTCCGGAGGTGGGGAGATGAAA 16 228 0 TAATTGAATCTTACTTCGGTGAAGTACTCAAG 17 14 1 ACAATAACTTTTTTATAGGGGATCGCATTTCT 19 19 1 ATCCTACTCCTTCTATAGGGGACGCTAACGTG 20 62 0 AATAAATTTTTTACTGAGGTCGC 22 1 0 ** * ******* MAP Score: 14.4635 Motif 4 AAGTTTCGTAGGTGGGAAAATA 0 78 1 AAAATCCCTTGGTGATATAAA 1 29 1 ATTTTATATTGGTGGTAAAATA 2 24 1 TTGAAGGGAAAGGGATAAAAAGGTTTAGTT 8 20 1 TAAAACCTTCTGTGATAAAGTCAACTAAAC 8 42 0 TGGAGATTAAGGAGGTGAAGGGTGA 9 5 0 AATTCTTTTTGGTGATGAAGA 9 117 1 ACAAGGTTGGGGGGAGGAAA 14 0 0 AATTTTCTGAGGGGAGGAAAG 14 125 1 ACCGGCTAAATGAGAGAAAACTCCCATGAG 16 192 1 CCGGAGGTGGGGAGATGAAAATTAAGCTCA 16 218 0 CTATATCCTCGGAGGGAAAC 20 0 0 TAGCTTCGAGAGGGATAAAAATAAGATAAT 20 94 1 TATATCATAAGGTGAGAAACC 21 21 1 ********** MAP Score: 11.6119 Motif 5 ACGAAACGTTTTTATATATCTTCACATTTCTTAGGAGA 5 42 1 CCGCATCTTCTGTAGCTATCTTACCATTTATAATAATT 16 59 1 ATTTAACTACTTAAGTTAAATTTATTTTT 16 253 1 GTAGTATAACTGGAGGTAATTTTAGCTTACAATAGGGA 8 148 1 AAAAAGGTTTTCAAAATATTTAAAGTTTTAAAAAAA 0 8 0 ATTTACCTTCTTTAGGTATTTAAAGCTTGCTTTTGGCT 9 82 0 TGTTTTAGGTTTAAATTATGTACCTATTCTAACGGAAT 15 31 1 CCCTAATTTGTGTATGTAACTAAAGTTTCGTAGGTGGG 0 56 1 GGGTCTTAAAGTAAGATTAACTTGAAGGTGA 18 5 1 TCGAGAGGGATAAAAATAAGATAATTTTAGAAATCATA 20 99 1 GCATCTACTTTGAAAATAATTTTGGTTTGTAAGTGCAT 6 31 1 GGTTTTGAACTTAAAGTATAAAAAATTTGTTTCATCTG 6 71 0 TACCATTTATAATAATTATCTTCCCTTTGATGTCATCA 16 80 1 GGAAAGAGTTATAAACTAACTTCCAATTATGTGTGTGA 14 31 0 TGCATTCAGCTCTAAGTATAAAAGAGTTGAGCTCTTAA 3 41 0 GGTTAACTTAAAAATGTATCATTCGATTAAGGAATAGT 13 10 0 CTGTATATCTAGGTAAACATTTAGGGGATTT 7 39 0 CTACTTAAATTGCAACTTTATAAACATTGAGAAGGTTT 11 14 1 TAAAGTCAACTAAACCTTTTTATCCCTTTCCCTTCAAC 8 19 0 * * *** ** * ** MAP Score: 10.969 Motif 6 AAAGACTAAAAAAGGTTTTCAAAATATTTAAAGTTT 0 18 0 AATCTTTAGCATCTACTTTGAAAATAATTTTGGTTT 6 23 1 CTTAAGGTTTTGAACTTAAAGTATAAAA 6 86 0 ACTTTATCACAGAAGGTTTTAATTTATTCTACAGAA 8 51 1 TGATTTAACGAGAAACTTTTAAAAGAGGGATTTTAA 8 97 1 CTCAATGTTTATAAAGTTGCAATTTAAGTAGTCAT 11 9 0 CGAATTAGACTAATAATTTAAAAGTATAATTGCTCA 12 76 1 TAATCGAATGATACATTTTTAAGTTAACCCTCGAGC 13 19 1 TGTTTCACACACATAATTGGAAGTTAGTTTATAACT 14 27 1 TAGAATAGGTACATAATTTAAACCTAAAACAACAAG 15 26 0 AAAAATAAATTTAACTTAAGTAGTTAAA 16 254 0 GAAATAATTGAATCTTACTTCGGTGAA 17 1 1 CTTAGATGGATTAAGGTTGCAATGGATGCTATTGAC 20 179 1 * * * *** ** ** MAP Score: 9.09097 Motif 7 TTTTTTTAAAACTTTAAATATTTTG 0 2 1 TTTGAAAACCTTTTTTAGTCTTTTACCCTAATT 0 31 1 ACGAAACGTTTTTATATATCTTCACATTTCTTA 5 42 1 ATGAAACAAATTTTTTATACTTTAAGTTCAAAA 6 74 1 CAACTAAACCTTTTTATCCCTTTCCCTTCAACC 8 18 0 ATCACAGAAGGTTTTAATTTATTCTACAGAAAT 8 56 1 ATTACCTCCAGTTATACTACTCTCTGTAGGTTA 8 135 0 TAAATGTGGGTTTATAAAGTTTTCGCGAGGAGT 10 38 0 ACCCACTTAATTTTTAGTTCATTGAGCAATTAT 12 101 0 TGGAAGTTAGTTTATAACTCTTTCCGTAGGAGT 14 44 1 TCCCATCAAATTTATATTTTATTCTTTGAAAAA 14 94 1 AATTATCTTATTTTTATCCCTCTCGAAGCTAAT 20 92 0 AAAAAGTAGGGTTATAAAGCTTTTCCTGGGATT 20 235 0 ****** **** MAP Score: 8.12936 Motif 8 GATTTTTAAGCGGGGAAGTATTTAA 1 1 0 GTAAACATTTAGGGGATTTATATAATCTATCCAT 7 24 0 CATAGGTTGAAGGGAAAGGGATAAAAAGGTTTAG 8 14 1 TTTGATTTAACGAGAAACTTTTAAAAGAGGGATT 8 95 1 AATCTCCATCCAGGAATTTTATTAGGATGTCGGT 9 27 1 AAAGTTTTCGCGAGGAGTTTTAAACAAGGATAGC 10 22 0 ATGACATCAAAGGGAAGATAATTATTATAAATGG 16 82 0 AGAAGAGAGTTGGGGATATCCTTAGGGAAACTAT 16 127 0 CTCAATCTCCTGGGAACCGGCTAAATGAGAGAAA 16 177 1 CTTCCGGAGGTGGGGAGATGAAAATTAAGCTCAT 16 217 0 CTCCCCACCTCCGGAAGATATTTAACTACTTAAG 16 234 1 ACTTTTTTATAGGGGATCGCATTTCTTTAGCTTG 19 25 1 TTCTGCCATGCGGGGAACTGTTAATTCCTACCTT 20 148 1 CTTCTAATCCCAGGAAAAGCTTTATAACCCTACT 20 230 1 ****** * *** MAP Score: 6.07979 Motif 9 CCTCGGGCGTGCCCGCCGCCGCTAAAGCT 4 9 1 AAAAAATTTGTTTCATCTGAAATGCACTTA 6 60 0 AACTAAACCTTTTTATCCCTTTCCCTTCAA 8 20 0 GAAGTGCCCTCCCTATTGTAAGCT 8 171 0 TATACTGGACTTTACTCCCAAATTTTTAG 12 9 0 TTTCCTCCCCCCAACCTTGT 14 0 1 CTTTCCTCCCCTCAGAAAATT 14 125 0 TCTTTATCCGTTACCTCCGCATCTTCTGTA 16 43 1 CTCATGGGAGTTTTCTCTCATTTAGCCGGT 16 192 0 TGAGCTTAATTTTCATCTCCCCACCTCCGG 16 218 1 GCTAAAGAAATGCGATCCCCTATAAAAAAG 19 26 0 GTTTCCCTCCGAGGATATAGCA 20 2 1 ATTATCTTATTTTTATCCCTCTCGAAGCTA 20 94 0 ********** MAP Score: 3.52769 Motif 10 AATACCCCTTTTCTATTTTATATTGG 2 5 1 TTATTCCCTTTTCTTCCGATACTCTT 3 5 1 CGTGATCCCCCATAATCTTTAGCATCTACT 6 9 1 CCTTTTTATCCCTTTCCCTTCAACCTATGAC 8 12 0 CCCTTCACCTCCTTAATCTCCATCCAGGAAT 9 13 1 GCTTTTTCCTTTTCTTCTTGTTGTTTT 15 6 1 AAATCTTTATCCGTTACCTCCGCATCTTCTG 16 40 1 GAAATTTTAACCTCAATCTCCTGGGAACCGG 16 166 1 CCTTTCTCTACAATAACTTTT 19 0 1 ATTCATGAGGCCGTTTTCTATGAGCACGTTA 20 38 1 ** ******** MAP Score: 3.24045 Motif 11 ATGTACCTATTCTAACGGAATGATTTATATAGTATGG 15 48 1 GGGTCTTAAAGTAAGATTAACTTGAAGGTG 18 3 1 CTTCAAACCACCTAAGTATAAGATTGACACCATACTA 15 77 0 ACTGGCATTACCTTAACGAAATCTTTATCCGTTACCT 16 22 1 GAAGTGCCCTCCCTATTGTAAGCTAAAATTACCTCCA 8 158 0 GAAACCTCAAGCCAAAAGCAAGCTTTAAATACCTAAA 9 73 1 GAACTTCTAATCCCAGGAAAAGCTTTATAACCCTACT 20 227 1 TAGTTGACTTTATCACAGAAGGTTTTAATTTATTCTA 8 45 1 CTTTCCTCCCCTCAGAAAATTTTTCAAAGAATAAAA 14 110 0 TTTATATCACCAAGGGATTTTTAAGCGGGGAAGT 1 16 0 TTGAGTACTTCACCGAAGTAAGATTCAATTATTTC 17 8 0 GCGACCTCAGTAAAAAATTTATTACTACAGC 22 4 1 ACTATTCCTTAATCGAATGATACATTTTTAAGTT 13 7 1 AACTCGGTACTCCTACGGAAAGAGTTATAAACTAACT 14 48 0 *** * * * * ** * MAP Score: 3.08446 Motif 12 TTATTCCCTTTTCTTCCGATACTCTTTT 3 8 1 ACGTTTTTATATATCTTCACATTTCTTAGG 5 47 1 TTTTATCCCTTTCCCTTCAACCTATGACAA 8 10 0 TAAGCTAAAATTACCTCCAGTTATACTACT 8 147 0 TTTCCTCCCCCCAACCTTGT 14 0 1 CTTTCCTCCCCTCAGAAAATT 14 125 0 ACTACTGGCATTACCTTAACGAAATCTTTA 16 19 1 TCTTTATCCGTTACCTCCGCATCTTCTGTA 16 43 1 TTTATAATAATTATCTTCCCTTTGATGTCA 16 85 1 AGCTTAATTTTCATCTCCCCACCTCCGGAA 16 220 1 AAGTAGTTAAATATCTTCCGGAGGTGGGGA 16 235 0 GTTTCCCTCCGAGGATATAGC 20 1 1 ********** MAP Score: 2.06204