AlignACE 3.0 10/20/99 AlignACE2 -i PH/PH_operons015_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944256021 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 PH0107 56 139aa long hypothetical protein #1 PH0109 300 1188aa long hypothetical protein #2 PH0267 73 178aa long hypothetical protein #3 PH0307 112 486aa long hypothetical inosine-5'-monophosphate dehydrogenase #4 PH0498 110 379aa long hypothetical protein #5 PH0600 97 392aa long hypothetical protein #6 PH0601 300 138aa long hypothetical protein #7 PH0909 155 656aa long hypothetical DNA-binding protein #8 PH1311 118 160aa long hypothetical protein #9 PH1748 271 192aa long hypothetical protein #10 PH1780 115 285aa long hypothetical protein #11 PH1781 54 134aa long hypothetical protein #12 PH1782 300 399aa long hypothetical protein #13 PH1856 300 409aa long hypothetical protein Motif 1 GTCGACAAGTTTTTTATACCCCTCAATTAGTTC 3 62 1 CCCTAACCATTTTTCATCCCCCTTTGGTTTTCG 13 184 1 TCCTCTTTCTTTTTAATGACCCTAATGTATTCG 1 51 0 AAACAATTTATTTTACTCTCCCTTGGAATTTAA 5 61 0 CAATTACTTTTTCTACTTTCCCTATCTCAATAG 13 136 1 TCTCAAGGTTTTCTAGTGCCTCTTCCGTTATAC 8 63 1 TAAAGGTAGGTTTAACTTTCCCTTCTATGGATT 1 144 1 CTTCCTCTCCTCCTCACCCTTTTTTATGAA 3 92 0 AAGCGTTACATCCTCTTCTCCCTTCTTAAAAAA 1 175 0 CGAAACTTTTATTAACCTTTCTTTACTAA 5 6 1 CAATTTTACTACCTTTTCTATCTTCA 10 3 1 TTTTTAATTTACCTTGATAGGAAGA 1 2 1 AATGTATTCGTTCAGCTCTCCTTTCTTCTTCCT 1 28 0 TTCCGAAAAGTTTATATATCTCTATTTTCAAAA 12 10 0 ATATTTAAATTTTACCTTCCCATAGGTCGACAA 3 37 1 ACATAATATTTTTAAGTGCCTTTGGGTAACTGA 2 30 1 GGATTTCAAGTTCAAATTCCTTTCCCCACTTTG 1 101 0 CACAATAAAGTTTAATATCCCCTTCTTAATTAA 9 231 1 GCATGAAAATTCCTGGTGCCCCGGCCGGGATTT 6 122 1 TATATCATTTTCCATTTGACCTTAAAGGTTAAA 13 250 1 CTAATGCCTTATTTTCTTCCTCTTTCTTTTTAA 1 68 0 **** * ***** MAP Score: 20.0863 Motif 2 CTGGTGCCCCGGCCGGGATTTGAACCCGGGGCGCGGGCTCG 6 134 1 CCCTCGCAAGGGCTCGGTCAACCCGCCCCCGCAAGGTTTCG 9 99 1 CCGCATGTTTGGCCGGGCTACACCACCGGGGCAGACCCATT 6 181 1 CCTCAGGCTGGGCAAGGATCATCATCCGCCCACAAGAATTT 9 11 1 GAGCCTACAGGGCCGGTGCATCCGCCCGCGGGATTAATGAC 9 168 1 CTTTATTGTGGGCCGGCAACAGAGACCCAGCGGTCATTAAT 9 200 0 ACCGAGCCCTTGCGAGGGTATTGTACCCTCGCTGTCGGCGA 9 76 0 CGGCCCTGTAGGCTCGGCGTGAGCACACCCCGCTCATCGAC 9 142 0 CGGCCAAACATGCGGGCCTTTCGAGCCCGCGCCCCGGGTTC 6 155 0 ATGGAGTATCTTCCTGGTCAACTCCCCGAGGTCATTGGCCT 13 20 1 GGCATCGTAGGGCCCGGTAACTGCGTCGGCTTTGGTGACAC 13 74 1 *** ** *** ** MAP Score: 18.3286 Motif 3 ATTAGCAAAGTGGGGAAAGGAATTTGAACTTG 1 96 1 AAATCCATAGAAGGGAAAGTTAAACCTACCTT 1 146 0 ATTTTTTAAGAAGGGAGAAGAGGATGTAACGC 1 174 1 AAGTACTATAGAGGGAACGTTATAATATTCGG 1 220 1 AATATTATGTGAGGGAGTGATGGTGAGAAT 2 8 0 ACTGAAGTTGAAGGGAGGGGTAAGC 2 58 1 TTGTCGACCTATGGGAAGGTAAAATTTAAATA 3 38 0 GAACTAATTGAGGGGTATAAAAAACTTGTCGA 3 63 0 GTTCATAAAAAAGGGTGAGGAGGAGAGGAAG 3 91 1 ATTTATAAATAGGGGAAGGATTATATTTAA 4 8 0 AAGTTAAACTAAGGGTACGAAA 4 98 1 TTTAAATTCCAAGGGAGAGTAAAATAAATTGT 5 60 1 CTTTTGAGAAAGGGGTAAGCATGAAAATTCCT 6 104 1 ATCGAAAATTAAGGAAATGCTAATGGGTCTGC 6 211 0 CGCCGACAGCGAGGGTACAATACCCTCGCAAG 9 77 1 ATTAATTAAGAAGGGGATATTAAACTTTATTG 9 233 0 AATTTTATTTGGGGGAGAGAATTTGAGTGATG 12 246 1 AATTTGAGTGATGGGAAAATAATACATGATGC 12 265 1 ACTATTGAGATAGGGAAAGTAGAAAAAGTAAT 13 138 0 CGAAAACCAAAGGGGGATGAAAAATGGTTAGG 13 185 0 ******* * ** MAP Score: 17.2149 Motif 4 TTTTTAATTTACCTTGATAGGAAGAAGAAAGGAGAGCTGAA 1 9 1 TACATTAGGGTCATTAAAAAGAAAGAGGAAGAAAATAAGGCA 1 55 1 AATAAGGCATTAGCAAAGTGGGGAAAGGAATTTGAACTTGAA 1 88 1 TTCTATGGATTTTTTAAGAAGGGAGAAGAGGATGTAACGCTT 1 166 1 GGGAACGTTATAATATTCGGGGACGAAGAGGAGGCTTACCAA 1 232 1 CTCAATTAGTTCATAAAAAAGGGTGAGGAGGAGAGGAAG 3 83 1 AATATGAATATTTATAAATAGGGGAAGGATTATATTTAA 4 7 0 TCAACAGGTTTAAATTCCAAGGGAGAGTAAAATAAATTGTTT 5 52 1 CACAGTCTCTTTTGAGAAAGGGGTAAGCATGAAAATTCCTGG 6 96 1 TGGTGAATTGTTATAGTGTCGGATGAGTACTAACAACCTTAT 7 84 1 TCCTCAGGCTGGGCAAGGATCATCATCCGCCC 9 0 1 GGGGAGAGAATTTGAGTGATGGGAAAATAATACATGATGCTG 12 257 1 TTTTGTTAACTATTGAGATAGGGAAAGTAGAAAAAGTAATTG 13 136 0 * *** ***** * MAP Score: 16.7423 Motif 5 CTAGGGCCTGAGGGTTTAAATTCTTGTATGAGAA 0 20 1 TGGAGGATTTCAAGTTCAAATTCCTTTCCCCACT 1 104 0 GGATATTGTTCAGGTTTAAAAGCTCTCTGAACTT 1 274 0 TGAGGATCAACAGGTTTAAATTCCAAGGGAGAGT 5 46 1 GCCCGCGCCCCGGGTTCAAATCCCGGCCGGGGCA 6 138 0 ACCCGGGGCGCGGGCTCGAAAGGCCCGCATGTTT 6 157 1 CAGGCTGGGCAAGGATCATCATCCGCCCACAAGA 9 14 1 GCCGACAGCGAGGGTACAATACCCTCGCAAGGGC 9 78 1 CGCAAGGTTTCGGGGTCGATGAGCGGGGTGTGCT 9 128 1 CATCCGCCCGCGGGATTAATGACCGCTGGGTCTC 9 186 1 GGCCCACAATAAAGTTTAATATCCCCTTCTTAAT 9 227 1 AAATTACCAGAAGGCTCAAATTCCGAAAAGTTTA 12 29 0 CATAGAGAAAAGGAATTAAAGACCTTCAAAAATT 12 216 1 GTCAACTCCCCGAGGTCATTGGCCTCTATGTGTA 13 36 1 TATAAGAGGTAAGAGTCAAACTCCAAGTGTAAGC 13 220 0 **** **** ** MAP Score: 16.4073 Motif 6 CACTCCCTCACATAATATTTTTAAGTGCCTTTGG 2 21 1 TCCCATAGGTCGACAAGTTTTTTATACCCCTCAA 3 54 1 TCCTCTCCTCCTCACCCTTTTTTATGAACTAATT 3 86 0 CGAAACTTTTATTAACCTTTCTTT 5 0 1 ATATCACCTCCAAACAATTTATTTTACTCTCCCT 5 71 0 TGCGTCAGTTCGAAAACTTTTTAAATCGAAAATT 6 233 0 CAACCTTATACCAAAACTTTTTGAATTGAACATT 7 117 1 TACATAGTCGCGAAAGACTTTTTAACG 8 3 0 CTACTGCAATCTCAAGGTTTTCTAGTGCCTCTTC 8 54 1 TGATATATTTCTCAATTTTTTCCTTTGAGATT 8 96 1 ATCATCCGCCCACAAGAATTTTAAGCTATAATTT 9 31 1 GGGCATCTTACCCAACATTTTTCAATAAGATTTA 10 60 1 TCATTTCCAGCCAAATGCTTATAACCT 11 3 0 GCTCAAATTCCGAAAAGTTTATATATCTCTATTT 12 16 0 TAAAGACCTTCAAAAATTTTATTTGGGGGAGAGA 12 232 1 AACATACGCCCTAACCATTTTTCATCCCCCTTTG 13 176 1 * *** ***** * MAP Score: 12.966 Motif 7 CTCATACAAGAATTTAAACCCTCAGGCCCTAGG 0 19 0 GGAGGATTTCAAGTTCAAATTCCTTTCCCCACT 1 104 0 ATAGAAGGGAAAGTTAAACCTACCTTTAAGCCC 1 139 0 GGGAAGGTAAAATTTAAATATACATTTTTACAC 3 25 0 TCTCCCTTGGAATTTAAACCTGTTGATCCTCAC 5 45 0 CCAAACAATTTATTTTACTCTCCCTTGGAATTT 5 63 0 GAACTGACGCAATTTTAATATTCAATGAATGAA 6 256 1 CACATTTTACAATTTAAAACTTTTATCTGGTGA 7 57 1 CGCCCACAAGAATTTTAAGCTATAATTTATTAA 9 37 1 ATAATTTATTAATTTTAATCGCCGACAGCGAGG 9 58 1 GCCCACAATAAAGTTTAATATCCCCTTCTTAAT 9 228 1 AACTTTTCGGAATTTGAGCCTTCTGGTAATTTA 12 31 1 AAGCCCCAGAAATTTCACGCTGTTAAGACAATT 12 93 0 TGTGAGTAATTATTTCAAGTTGCCTCAATTCAG 12 128 0 TTGACCTTAAAGGTTAAATCTTCCAAATCCCAA 13 265 1 ***** ** ** * MAP Score: 10.7862 Motif 8 ATTTATTTTACTCTCCCTTGGAATTTAAACCTGTTGAT 5 51 0 TTCTCACCATCACTCCCTCACATAATATTTTTAAGTGC 2 11 1 GCTTACCCCTCCCTTCAACTTCAGTTACCCAAA 2 50 0 TTATATCACCTCCAAACAATTTATTTTACTCTCC 5 73 0 TCCTCTCCTCCTCACCCTTTTTTATGAACTAATTGAGG 3 82 0 TTTTATTAAGTCCCTCCTCTAAAGTTAAACTAAGGGTA 4 77 1 CTCTCCTTTCTTCTTCCTATCAAGGTAAATTAAAAA 1 8 0 GCCTCCTCTTCGTCCCCGAATATTATAACGTTCCCTCT 1 229 0 GTTCAAATTCCTTTCCCCACTTTGCTAATGCCTTATTT 1 87 0 CTCAAATTCTCTCCCCCAAATAAAATTTTTGAAGGTCT 12 235 0 GCTCGGTCAACCCGCCCCCGCAAGGTTTCGGGGTCGAT 9 110 1 GATCATCATCCGCCCACAAGAATTTTAAGCTATAATTT 9 27 1 TTAAATATAATCCTTCCCCTATTTATAAATATTCATAT 4 10 1 TTTCTAGTGCCTCTTCCGTTATACTGATATATTTCTCA 8 72 1 AAGTGGGCATCTTACCCAACATTTTTCAATAAGATTTA 10 56 1 TAAAGTTTAATATCCCCTTCTTAATTAATAGATGGAGG 9 236 1 TTGGGTAAGATGCCCACTTTGTAATTAATCCTCATGTA 10 37 0 TTACATCCTCTTCTCCCTTCTTAAAAAATCCATAGAAG 1 165 0 CTTTCGAGCCCGCGCCCCGGGTTCAAATCCCGGCCGGG 6 141 0 CCCTCTATAGTACTTCCTAAAAAATGCAAGCGTTACAT 1 197 0 TGGAGTTTGACTCTTACCTCTTATATCATTTTCCATTT 13 229 1 TTGAAATAATTACTCACAAATTAAGTATAAGTAAAACT 12 143 1 ACTTTCTAGATATTCCCTAACATGTTCTGCAAGAACAG 6 32 0 * * *** ** *** MAP Score: 9.38025 Motif 9 TTCAAATTCCTTTCCCCACTTTGCTAATGCCTTATTTT 1 86 0 TAACCATTTTTCATCCCCCTTTGGTTTTCGAAAGCTTA 13 187 1 ATGCCTTATTTTCTTCCTCTTTCTTTTTAATGACCCTA 1 60 0 GCTTACCCCTCCCTTCAACTTCAGTTACCCA 2 52 0 ACAATTTATTTTACTCTCCCTTGGAATTTAAACCTGTT 5 54 0 CAATTTTACTACCTTTTCTATCTTCATTACA 10 3 1 CTTCAATTACTTTTTCTACTTTCCCTATCTCAATAGTT 13 133 1 CAAGGTTTTCTAGTGCCTCTTCCGTTATACTGATATAT 8 66 1 TGTATTCGTTCAGCTCTCCTTTCTTCTTCCTATCAAGG 1 21 0 CTTCCTCTCCTCCTCACCCTTTTTTATGAAC 3 91 0 GCAAGTGCCTCCAATTTATTCTTTGGAGTGTTA 7 5 1 GGAGTTTGACTCTTACCTCTTATATCATTTTCCATTTG 13 230 1 TACATCCTCTTCTCCCTTCTTAAAAAATCCATAGAAGG 1 164 0 GCAGACCCATTAGCATTTCCTTAATTTTCGATTTAAAA 6 211 1 CAATAAAGTTTAATATCCCCTTCTTAATTAATAGATGG 9 233 1 GTTCCCTCTATAGTACTTCCTAAAAAATGCAAGCGTTA 1 200 0 AAATATAATCCTTCCCCTATTTATAAATATTCATATTT 4 12 1 * * ** **** ** MAP Score: 7.99755 Motif 10 CTGGTGCCCCGGCCGGGATTTGAACCCGGGGCGCGGGCTC 6 134 1 TGAACCCGGGGCGCGGGCTCGAAAGGCCCGCATGTTTGGC 6 154 1 CCGCATGTTTGGCCGGGCTACACCACCGGGGCAGACCCAT 6 181 1 ATCGCCGACAGCGAGGGTACAATACCCTCGCAAGGGCTCG 9 75 1 AACCTTGCGGGGGCGGGTTGACCGAGCCCTTGCGAGGGTA 9 97 0 CGGGGTCGATGAGCGGGGTGTGCTCACGCCGAGCCTACAG 9 138 1 TTAATCCCGCGGGCGGATGCACCGGCCCTGTAGGCTCGGC 9 165 0 CTTTATTGTGGGCCGGCAACAGAGACCCAGCGGTCATTAA 9 201 0 TCGGGGAGTTGACCAGGAAGATACTCCATGACATCCATA 13 9 0 ******* ** * MAP Score: 6.51458 Motif 11 TCTTCCTCTTTCTTTTTAATGACCCTAATGTATT 1 53 0 AAGTTAAACCTACCTTTAAGCCCCTGGAGGATTT 1 128 0 GGCTTAAAGGTAGGTTTAACTTTCCCTTCTATGG 1 140 1 GGATATTGTTCAGGTTTAAAAGCTCTCTGAACTT 1 274 0 CCTCACATAATATTTTTAAGTGCCTTTGGGTAAC 2 26 1 ATGTATATTTAAATTTTACCTTCCCATAGGTCGA 3 33 1 CGAAACTTTTATTAACCTTTCTTTACT 5 3 1 TGAGGATCAACAGGTTTAAATTCCAAGGGAGAGT 5 46 1 CGAACTGACGCAATTTTAATATTCAATGAATGAA 6 255 1 TATAATTTATTAATTTTAATCGCCGACAGCGAGG 9 57 1 GGCCCACAATAAAGTTTAATATCCCCTTCTTAAT 9 227 1 CAATTTTACTACCTTTTCTATCTT 10 0 1 CAAATTCCGAAAAGTTTATATATCTCTATTTTCA 12 13 0 ATTAGTTAACCATGTTGAATTATCAATGTGAATA 12 62 0 CTATACTAGATAGGTTTAAGATCGCGAGAAGTTC 12 179 1 ACGCCCTAACCATTTTTCATCCCCCTTTGGTTTT 13 181 1 ** ****** ** MAP Score: 4.20403 Motif 12 GGGGCTTAAAGGTAGGTTTAACTTTCCCTTCTATGGATTTT 1 138 1 CTGGTGCCCCGGCCGGGATTTGAACCCGGGGCGCGGGCTCG 6 134 1 GAACCCGGGGCGCGGGCTCGAAAGGCCCGCATGTTTGGCCG 6 155 1 CCGCATGTTTGGCCGGGCTACACCACCGGGGCAGACCCATT 6 181 1 ACCTTGCGGGGGCGGGTTGACCGAGCCCTTGCGAGGGTATT 9 95 0 GGGTCGATGAGCGGGGTGTGCTCACGCCGAGCCTACAGGGC 9 140 1 GAGCCTACAGGGCCGGTGCATCCGCCCGCGGGATTAATGAC 9 168 1 GATTAATGACCGCTGGGTCTCTGTTGCCGGCCCACAATAAA 9 199 1 TCTATGTGTACGATGGCATCGTAGGGCCCGGTAACTGCGTC 13 60 1 CCGGTAACTGCGTCGGCTTTGGTGACACCTGGTATCTTCTT 13 87 1 ** ** * **** * MAP Score: 1.91705 Motif 13 AGCATGAAAATTCCTGGTGCCCCGGCCGGGATTTGAACCC 6 121 1 GGGCTCGAAAGGCCCGCATGTTTGGCCGGGCTACACCACC 6 168 1 CCTCAGGCTGGGCAAGGATCATCATCCGCCCACAAGAATT 9 11 1 CCCTCGCAAGGGCTCGGTCAACCCGCCCCCGCAAGGTTTC 9 99 1 CCCGCAAGGTTTCGGGGTCGATGAGCGGGGTGTGCTCACG 9 126 1 CGAGCCTACAGGGCCGGTGCATCCGCCCGCGGGATTAATG 9 167 1 TATGGATGTCATGGAGTATCTTCCTGGTCAACTCCCC 13 7 1 GGCATCGTAGGGCCCGGTAACTGCGTCGGCTTTGGTGACA 13 74 1 *** ** *** ** MAP Score: 1.03846 Motif 14 GTCATTAAAAAGAAAGAGGAAGAAAATAAGGCATTA 1 64 1 TAGCAAAGTGGGGAAAGGAATTTGAACTTGAAATCC 1 98 1 GGGGACGAAGAGGAGGCTTACCAAAAGTTCAGAGAG 1 250 1 TTCATAAAAAAGGGTGAGGAGGAGAGGAAG 3 92 1 TTAAATTCCAAGGGAGAGTAAAATAAATTGTTTGGA 5 61 1 TTTTGAGAAAGGGGTAAGCATGAAAATTCCTGGTGC 6 105 1 TCAGTATAACGGAAGAGGCACTAGAAAACCTTGAGA 8 63 0 TAATGAAGATAGAAAAGGTAGTAAAATTG 10 3 0 TCATTCATAGAGAAAAGGAATTAAAGACCTTCAAAA 12 211 1 CTATTGAGATAGGGAAAGTAGAAAAAGTAATTGAAG 13 133 0 GAAAACCAAAGGGGGATGAAAAATGGTTAGGGCGTA 13 180 0 AAGGTCAAATGGAAAATGATATAAGAGGTAAGAGTC 13 237 0 **** * * * * ** MAP Score: 0.44954 Motif 15 TCGAGCCCGCGCCCCGGGTTCAAATCCCGGCCGGGGCACCA 6 135 0 TTTGAACCCGGGGCGCGGGCTCGAAAGGCCCGCATGTTTGG 6 152 1 CTAATGGGTCTGCCCCGGTGGTGTAGCCCGGCCAAACATGC 6 183 0 TCCTCAGGCTGGGCAAGGATCATCATCCGCCCACAAGAATT 9 10 1 ACCCTCGCAAGGGCTCGGTCAACCCGCCCCCGCAAGGTTTC 9 98 1 CCCCCGCAAGGTTTCGGGGTCGATGAGCGGGGTGTGCTCAC 9 124 1 CACGCCGAGCCTACAGGGCCGGTGCATCCGCCCGCGGGATT 9 162 1 CGGTGCATCCGCCCGCGGGATTAATGACCGCTGGGTCTCTG 9 181 1 TGGCATCGTAGGGCCCGGTAACTGCGTCGGCTTTGGTGACA 13 73 1 ** * *** **** MAP Score: 0.399076 Motif 16 AAGGCATTAGCAAAGTGGGGAAAGGAATTTGAACTTGAAAT 1 91 1 AACTTGAAATCCTCCAGGGGCTTAAAGGTAGGTTTAACTTT 1 122 1 GGTTCAAATCCCGGCCGGGGCACCAGGAATTTTCATGCTTA 6 119 0 CCGGGCTACACCACCGGGGCAGACCCATTAGCATTTCCTTA 6 193 1 ACCCCGAAACCTTGCGGGGGCGGGTTGACCGAGCCCTTGCG 9 103 0 TCACGCCGAGCCTACAGGGCCGGTGCATCCGCCCGCGGGAT 9 161 1 TGTACGATGGCATCGTAGGGCCCGGTAACTGCGTCGGCTTT 13 66 1 CTTTCGAAAACCAAAGGGGGATGAAAAATGGTTAGGGCGTA 13 180 0 ** * ***** * * MAP Score: 0.120244 Motif 17 TTTTGGTAAGCCTCCTCTTCGTCCCCGAATATTATAA 1 239 0 CATGAAAATTCCTGGTGCCCCGGCCGGGATTTGAACC 6 123 1 GGGATTTGAACCCGGGGCGCGGGCTCGAAAGGCCCGC 6 148 1 GTGGTGTAGCCCGGCCAAACATGCGGGCCTTTCGAGC 6 170 0 TAAGGAAATGCTAATGGGTCTGCCCCGGTGGTGTAGC 6 197 0 CTCGCAAGGGCTCGGTCAACCCGCCCCCGCAAGGTTT 9 101 1 GTGAGCACACCCCGCTCATCGACCCCGAAACCTTGCG 9 128 0 TGTGCTCACGCCGAGCCTACAGGGCCGGTGCATCCGC 9 156 1 GGAGTATCTTCCTGGTCAACTCCCCGAGGTCATTGGC 13 22 1 ** * * * ***** MAP Score: 0.0684116