AlignACE 3.0 10/20/99 AlignACE2 -i CP/CP_operons009_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944237627 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ybaB 64 YbaB family hypothetical protein #1 dnaX_1 300 DNA Polymerase III Gamma and Tau #2 uvrA 240 Excinuclease ABC Subunit A #3 CPn0276 263 CT191 hypothetical protein #4 CPn0277 146 hypothetical protein #5 dppF_1 300 Dipeptide Transporter ATPase #6 recR 94 Recombination Protein #7 yaeT 300 Omp85 Analog #8 CPn0301 94 (OmpH-Like Outer Membrane Protein) #9 lpxD 21 UDP Glucosamine N-Acyltransferase #10 ndk 71 Nucleoside-2-P Kinase #11 ruvC 142 Crossover Junction Endonuclease #12 CPn0622 300 CT503 hypothetical protein #13 lpxC 29 Myristoyl GlcNac Deacetylase #14 yciA 130 acyl-CoA Thioesterase #15 dnaQ_2 24 DNA Polymerase III Epsilon Chain #16 minD 32 chromosome partitioning ATPase #17 thrS 199 Threonyl tRNA Synthetase Motif 1 GACAAAGAAGTTTTTTAACAAGACCTTACTACTTAGA 7 209 0 AAAATGAATCTCTTTGAATAAAATACTATATATTAGT 1 120 0 AAGAAGCTTTTTTTTATAAAAAAACTTTTATTTTTTA 17 104 0 TTTTTTAATATTTTTTCAAAAAAGAATATAAAATATT 2 53 0 AAATCTTTGTTGTTTTCAGAAAAGGCTTTTGGTACCC 8 36 1 GAACTTCTTTTCCTTCAATAAAATATTTCGGGTAAAA 4 75 0 TGATCTTATTTCCTTCAATAAAATATTTCGATCTTTT 4 42 1 TTTCTATCCTTATGGAAAAAGATCATCTTTAAA 12 6 1 ATTATTTTTGTATTTCTAAAGAAATTTAAATTGTGTT 7 173 0 AAGTTGCCTGTCTTTTTAAAAGTCACTTATGACGAAT 12 211 1 AGATTCATTTTCCTTCTAAAGAAGAATTCACAAATTC 1 146 1 AACAAAGATTTCCTTCGATAAGTCCTTAATTTATATC 8 10 0 ATCTATGATTTTCTTTCATAAGTTACTGAAATTTTTG 14 34 0 TTGAACTTATTGTCTTTAAAAGATGATCCTAACCTAG 11 96 0 TCACAAATTCTATTTTAGAAGGAAAATCATTCCATCT 1 173 1 AAAATCGTTTTATTTTAGGAGGAGTATAGCATGATCT 10 20 0 GCAGTAAACTTGCTTGCAGAAATATATAGTATTATAG 5 199 1 GAATTCTCGGTTTCTAGAAAAAAATTTCCTGCTATTT 11 39 0 GACCTTTTCTGATTTTCATAAGAAAATTCTTTTCGCA 1 211 0 TTTAAGAGATTTTTTCTTGAAGACCTTTTCTGATTTT 1 232 0 ACAAGCTTTCTATCTAGGGAAGACTCTTGGGA 7 278 1 TCTCGTAATATACTTAGAAAGGTCTCTTACCTAACCT 2 206 0 GCACTTCGATTTCTAAAAAATAATCAAAAATTTC 14 7 1 GCGGGTTTTTTGCTTCCTTAAAAAGCTTAATAAACCT 7 73 0 TTATGATCAGTTTTTAAATAAAGTTTTAATAACATGC 3 144 0 ACCCTCTTTTTGTTTATATTAGATAGTTTGATAACAA 5 152 1 * *** * **** * MAP Score: 27.4668 Motif 2 GATTTTCATAAGAAAATTCTTTTCGCAGAGATG 1 205 0 AGAATACCCTATAAAAATCCTTTCGGTAGAGTC 14 103 1 GAATGTGTATAGAAAGCTCATTTTCTCATTTAA 1 264 0 AAAAAATATTAAAAAATTCTCTTTATTAACTCA 2 74 1 AATTCTTATGATAAAAATCCCTTTTAGGGGCTG 3 52 0 TAATATACTTAGAAAGGTCTCTTACCTAACCTT 2 205 0 CTATTTTAGAAGGAAAATCATTCCATCTCTGCG 1 182 1 ATTTTATTCAAAGAGATTCATTTTCCTTCTAAA 1 133 1 TTTAAATAGCAGGAAATTTTTTTCTAGAAACCG 11 36 1 AGGTCTTGTTAAAAAACTTCTTTGTCCCTATTT 7 220 1 GTATTAAAAAATAAAAGTTTTTTTATAAAAAAA 17 100 1 CTGTGGATATAAGAAGTTTCTTTTGATGCAGCA 3 114 1 TGATCAAAGCAAGAAGCTTTTTTTTATAAAAAA 17 118 0 TTCCCTAGATAGAAAGCTTGTTTATCAGATAAT 7 266 0 AAGACGAGACATAAAGGTCTCTCAATTTGATAA 3 195 1 TATCGTCACCAAGAAGTTCGTCTTGAAAATGCT 5 51 1 ATCCTTATGGAAAAAGATCATCTTTAAAGAACA 12 15 1 TAAGTATATTACGAGAATTCTTT 2 227 1 ATCTCCTTTAAATAAAATCGTTTTATTTTAGGA 10 37 0 GAATGTAAAAATAAAATTCACATCACT 6 77 1 ATTGAAGGAAAAGAAGTTCTCATAAAGAATCTA 4 93 1 AATGCTAACAACGAAAGTCCCCCTAACATGGAG 17 164 1 TGTTGTTTTCAGAAAAGGCTTTTGGTACCCTTT 8 43 1 TCTGAAAACAACAAAGATTTCCTTCGATAAGTC 8 23 0 TAACCTTGAGAAAAGAGTCATATCCGCACTGAT 2 179 0 TTTCTCATTTAAGAGATTTTTTCTTGAAGACCT 1 243 0 TTTTAAGAGCAGTAAACTTGCTTGCAGAAATAT 5 191 1 GATTTTTATCATAAGAATTCCTCTTCGTCTTAT 3 66 1 CCATGTAATCAGTAGAGTTATTTGAGCGACAAG 7 42 1 * **** ** *** MAP Score: 25.803 Motif 3 AATAGAATACAAAGAATCTTGAAGATTCGTTAACC 5 242 0 TTCTTTTTTGAAAAAATATTAAAAAATTCTCTTTA 2 64 1 TATTGAAGGAAAAGAAGTTCTCATAAAGAATCTAC 4 92 1 GTAACTTATGAAAGAAAATCATAGATTTTCTTTCA 14 45 1 TTTTTTCAAAAAAGAATATAAAATATTTCATTATA 2 45 0 GGTCTTCAAGAAAAAATCTCTTAAATGAGAAAATG 1 244 1 GTAAAGAAAAAAGCTAGTATACTATTCAGAG 6 6 1 TCTACAGATTAAAAAACTTAGAAAATTGCTCAGAA 12 165 0 ATATAAACAAAAAGAGGGTTGAATAGATGTAAGTT 5 136 0 TTTTCCTTCTAAAGAAGAATTCACAAATTCTATTT 1 153 1 TTCGATTTCTAAAAAATAATCAAAAATTTCAGTAA 14 14 1 AACTGATCATAAAGAAAAACAGAGAAAAGACGAGA 3 169 1 TTGCTTCCTTAAAAAGCTTAATAAACCTTGTCGCT 7 66 0 TTGGGTATAGAAAAAGGGTACCAAAAGCCTTTTCT 8 53 0 GCTTTGATCAAAAAAAACACTAAAATGCTAACAAC 17 141 1 TTAGGACGGGAAAAAATCAAACACAATTTAAATTT 7 154 1 GATTTCATCGAAAGCATTTTCAAGACGAACTTCTT 5 61 0 TCAGTTTTTAAATAAAGTTTTAATAACATGCTGCA 3 140 0 CTATCTGCTTAATAAACATTACAAACTGGTTTGCA 17 11 0 GGAACTAATAAAAACATCTTTTATACTATCTGCTT 17 36 0 ATAGTTTGATAACAAAATTTTAAGAGCAGTAAACT 5 174 1 ACAGAAACGAAAAAAGTCAATAAGACGAAGAGGAA 3 83 0 TAAATGAGAAAATGAGCTTTCTATACACATTCTCT 1 265 1 AAATAGGGACAAAGAAGTTTTTTAACAAGACCTTA 7 218 0 TTTATTTTTTAATACAAGTTCCAAAGCGCCAGGAG 17 80 0 TTTATCAGATAATGAGGTAAGCACAAAAATAGGGA 7 244 0 ****** ** * * MAP Score: 23.9609 Motif 4 ATAAACAAGCTTTCTATCTAGGGAAGACTCTTGGGA 7 274 1 TTTGATCTTATTTCCTTCAATAAAATATTTCGATCTT 4 40 1 GAGAACTTCTTTTCCTTCAATAAAATATTTCGGGTAA 4 77 0 AGAGATTCATTTTCCTTCTAAAGAAGAATTCACAAAT 1 144 1 ACTTTTTTCGTTTCTGTGGATATAAGAAGTTTCTTTT 3 101 1 TTAGTGTTTTTTTTGATCAAAGCAAGAAGCTTTTTTT 17 127 0 AAAATAAAAGTTTTTTTATAAAAAAAAGCTTCTTGCT 17 107 1 ATGGAATGATTTTCCTTCTAAAATAGAATTTGTGAAT 1 171 0 ACCATGAGTTTTTCATTGAATAGACAATAGGACAGT 2 9 0 ACAATTTAAATTTCTTTAGAAATACAAAAATAATCTA 7 176 1 GTAAGTTCTATTTCAAACGACACAACATTTGATCTAC 5 106 0 TCTTAGAAAATTTCATGAGAGGAAAGATCAATATTTC 0 19 1 ATAAAAATCCTTTCGGTAGAGTCAACA 14 113 1 GGAAAATGAATCTCTTTGAATAAAATACTATATATTA 1 122 0 TTCAACCCTCTTTTTGTTTATATTAGATAGTTTGATA 5 148 1 ATATAAGAAGTTTCTTTTGATGCAGCATGTTATTAAA 3 120 1 TTTATTAAGCTTTTTAAGGAAGCAAAAAACCCGCCGA 7 76 1 TTTTTAATATTTTTTCAAAAAAGAATATAAAATATTT 2 52 0 AACTTTTATTTTTTAATACAAGTTCCAAAGCGCCAGG 17 82 0 AAGATGATCTTTTTCCATAAGGATAGAAA 12 2 0 TAGAAAAAAATTTCCTGCTATTTAAAACAGTCCTGTT 11 25 0 **** * * * ** * MAP Score: 21.3673 Motif 5 TATCTCCTTTAAATAAAATCGTTTTATTTTAGGAGGAGT 10 32 0 GGTTTCTAGAAAAAAATTTCCTGCTATTTAAAACAGTCC 11 29 0 AGAGTTATCCAAATAAGTTGCCTGTCTTTTTAAAAGTCA 12 197 1 TTTTTTTTATAAAAAAACTTTTATTTTTTAATACAAGTT 17 95 0 TCTTCTTTAGAAGGAAAATGAATCTCTTTGAATAAAATA 1 132 0 GTAACTTATGAAAGAAAATCATAGATTTTCTTTCAGTTG 14 45 1 ATTTCCTTCAATAAAATATTTCGATCTTTTACCCGAAAT 4 49 1 TTTTTGATCAAAGCAAGAAGCTTTTTTTTATAAAAAAAC 17 116 0 TTCGATTTCTAAAAAATAATCAAAAATTTCAGTAACTTA 14 14 1 TTAGGACGGGAAAAAATCAAACACAATTTAAATTTCTTT 7 154 1 CTTTTAAAGACAATAAGTTCAAAGTATTTCAGGAATCGA 11 111 1 TTCTTTTTTGAAAAAATATTAAAAAATTCTCTTTATTAA 2 64 1 TTTTTTCAAAAAAGAATATAAAATATTTCATTATACCAT 2 41 0 GTCGTTTGAAATAGAACTTACATCTATTCAACCCTCTTT 5 122 1 AGCAGATAGTATAAAAGATGTTTTTATTAGTTCCAATCT 17 37 1 TTCTATCCTTATGGAAAAAGATCATCTTTAAAGAACACG 12 11 1 ATGCAAACCAGTTTGTAATGTTTATTAAGCAGA 17 4 1 *** ** * * *** MAP Score: 8.23868 Motif 6 GAAAATGAATCTCTTTGAATAAAATACTATATATT 1 123 0 AATGATTTTCCTTCTAAAATAGAATTTGTGAATTC 1 169 0 ATCATTCCATCTCTGCGAAAAGAATTTTCTTATGA 1 198 1 TCAGAAAAGGTCTTCAAGAAAAAATCTCTTAAATG 1 236 1 TGTATAACCAAGAGAATGTGTATAGAA 1 283 0 CCATGAGTTTTTCATTGAATAGACAATAGGACAGT 2 10 0 TTTTAATATTTTTTCAAAAAAGAATATAAAATATT 2 53 0 AAGAGTTTGAGTTAATAAAGAGAATTTTTTAATAT 2 79 0 TAAAAGGGATTTTTATCATAAGAATTCCTCTTCGT 3 59 1 ATCGAAATATTTTATTGAAGGAAATAAGATCAAAA 4 39 0 AGAACTTCTTTTCCTTCAATAAAATATTTCGGGTA 4 78 0 ATATTAGATAGTTTGATAACAAAATTTTAAGAGCA 5 167 1 GGGTTTTTTGCTTCCTTAAAAAGCTTAATAAACCT 7 73 0 AGTAGTAAGGTCTTGTTAAAAAACTTCTTTGTCCC 7 213 1 TACCTCATTATCTGATAAACAAGCTTTCTATCTAG 7 260 1 AAATTAAGGACTTATCGAAGGAAATCTTTGTTGTT 8 15 1 ATCTTTGTTGTTTTCAGAAAAGGCTTTTGGTACCC 8 38 1 TATACATATCTCCTTTAAATAAAATCGTTTTATTT 10 42 0 GAATTCTCGGTTTCTAGAAAAAAATTTCCTGCTAT 11 41 0 TTTCTATCCTTATGGAAAAAGATCATCTTTAAA 12 8 1 AATTGAAGGCTTCTCTGAACAGACTGTCTTTTCGT 12 56 1 GCACTTCGATTTCTAAAAAATAATCAAAAATTTC 14 9 1 ATTTCAGTAACTTATGAAAGAAAATCATAGATTTT 14 39 1 AGAAGCTTTTTTTTATAAAAAAACTTTTATTTTTT 17 105 0 AGCTTCTTGCTTTGATCAAAAAAAACACTAAAATG 17 133 1 *** ** ***** MAP Score: 8.00135 Motif 7 AATGAATCTCTTTGAATAAAATACTATATATTAGTAGCTT 1 115 0 CTTTTCTGATTTTCATAAGAAAATTCTTTTCGCAGAGATG 1 205 0 TCAGAAAAGGTCTTCAAGAAAAAATCTCTTAAATGAGAAA 1 236 1 ACCAAGAGAATGTGTATAGAAAGCTCATTTTCTCATTTAA 1 264 0 TTTTTTAATATTTTTTCAAAAAAGAATATAAAATATTTCA 2 50 0 CGGTTTAATTTGTACTTGAAATCCCAAGATATCAGTGCGG 2 149 1 ATTCTCGTAATATACTTAGAAAGGTCTCTTACCTAACCTT 2 205 0 AGAGGAATTCTTATGATAAAAATCCCTTTTAGGGGCTGTA 3 50 0 AAACTTCTTATATCCACAGAAACGAAAAAAGTCAATAAGA 3 93 0 TTATGATCAGTTTTTAAATAAAGTTTTAATAACATGCTGC 3 141 0 CTTTTATTTATGAATATAAAATAGAATACAAAGAATCTTG 5 256 0 TATTTTTGTATTTCTAAAGAAATTTAAATTGTGTTTGATT 7 168 0 ATTAAGGACTTATCGAAGGAAATCTTTGTTGTTTTCAGAA 8 17 1 ACATATCTCCTTTAAATAAAATCGTTTTATTTTAGGAGGA 10 34 0 GAATTCTCGGTTTCTAGAAAAAAATTTCCTGCTATTTAAA 11 36 0 TTGAACTTATTGTCTTTAAAAGATGATCCTAACCTAGATA 11 93 0 AAGTTGCCTGTCTTTTTAAAAGTCACTTATGACGAATTAG 12 211 1 TTCAGTAACTTATGAAAGAAAATCATAGATTTTCTTTCAG 14 41 1 CTTTGGAACTTGTATTAAAAAATAAAAGTTTTTTTATAAA 17 89 1 ATAAAAGTTTTTTTATAAAAAAAAGCTTCTTGCTTTGATC 17 110 1 AGCTTCTTGCTTTGATCAAAAAAAACACTAAAATGCTAAC 17 133 1 * * * ***** * * MAP Score: 0.413571