AlignACE 3.0 10/20/99 AlignACE2 -i CP/CP_profile001_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944238739 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 rs21 178 S21 Ribosomal Protein #1 dnaJ 35 Heat Shock Protein J #2 pfrA 238 Peptide Chain Releasing Factor #3 CPn0334 220 CT079 similarity #4 tyrS 300 tyrosyl tRNA Synthetase #5 proS 299 Prolyl tRNA Synthetase #6 hrcA 91 HTH Transcriptional Repressor #7 dnaK 29 Heat Shock Protein-70 #8 lpxC 29 Myristoyl GlcNac Deacetylase #9 yciA 130 acyl-CoA Thioesterase #10 rs2 300 S2 Ribosomal Protein #11 sfhB 286 predicted Pseudouridine Synthase #12 CPn0849 285 SWI/SNF family helicase_2 #13 tpiS 130 Triosephosphate Isomerase Motif 1 TTTGTATTTTCTAAATATTTTTTACATTGTTG 0 6 1 TTGATACTGATTTTTCACCACTTTTTAGGGATTC 2 214 1 GTTACTGAAATTTTTGATTATTTTTTAGAAATCGAA 9 14 0 ATAGTTTAGATTTTTGAAGAGTTTTTAGCAACGACT 12 125 1 TACCAAGGTGTTTTAGAGAATTTTTTATCTGATTCC 2 176 1 TCTAAACTGCTTTTAAACAATTATTTATATAATATT 3 99 0 AATCAATGATTTTTTAATAGTTTTCTATCAGAAAAT 13 55 0 TTATGTATTATTTTAATTATATTTTTGTTTTTATTT 5 81 0 CTTAGCTTGATTTTTTATGTTTATCTAAACTGCTTT 3 122 0 AATGGGTTTTTTTGTGAGGGCTTTCTCTCTTGCAAT 2 65 1 CACTTAGAATTTTTCAAAAATAATTTAATGAGTCTA 11 165 0 AAGTTGATTTTTTTGTTTTTGTATTTTTT 3 3 0 CCGAAAGGATTTTTATAGGGTATTCTTGGTTGCGAT 9 93 0 GCTTTGTACCTCTATTTCAAAATTAGA 10 283 0 AATTAGTTTATTCTTAATAAGTTTTTTAATTAAAAT 3 48 0 TGCGAGTGTCTTTGTAAAGCAATTTT 11 0 0 CTGAGAAGGGCTTTGATAAAATTTTTCATTGATTTA 12 199 1 ATATTTTTGTTTTTATTTAGAAATTTAATAATCTCA 5 63 0 **** * ***** MAP Score: 16.8089 Motif 2 GTAGTGGTACAATCGAGGCTCTTCTAAAAGACATAGTAAG 0 82 1 CTCAGCGTACAATCTTTTCTTTATTGTTAGATAGGTGGTG 4 234 1 AAGATTAATAAGTATACACTTAATTATAAGTTGAGATTAT 5 32 1 GAATTGAATGAATGCTAACTTTTTTACGAGGAGGGCAGCG 6 19 0 AAGTTACTGAAATTTTTGATTATTTTTTAGAAATCGAAGT 9 12 0 TATGAAAGAAAATCATAGATTTTCTTTCAGTTGACCGATA 9 51 1 GAATTATTTACTTATGCTATTTTCTAATAGCTTCCTGTAG 10 56 1 CCAAGACTGAAATTCTGGCTTTTATGTCAGAATGCCGTTG 10 234 1 GCCTCAGTTGATTCCAGCATTTTATCTTAATTCAACGCAT 11 114 1 ATGCTAAATCAATGAAAAATTTTATCAAAGCCCTTCTCAG 12 199 0 AGCAGATTATATTATCCACTCTTATTCCAGAGGAGAA 12 258 1 GTGACTTTAGAGTAAGTGATTTTCTGATAGAAAACTATTA 13 37 1 TTCCCGACAGAATCAATGATTTTTTAATAGTTTTCTATCA 13 61 0 * * ***** * ** MAP Score: 14.9423 Motif 3 CTTACTATGTCTTTTAGAAGAGCCTCGATTGT 0 90 0 ATTATACAAGCTATTGCAAGAGAGAAAGCCCT 2 81 0 GGTCACGATAATTTTGAAATAGATAACGTTAG 2 129 1 TCTGCAAAACCTTTTGAAATCGATAATCATAA 3 183 1 CTAGTTGTGGCATTTAGACTAGTTGCGGCGTT 4 110 1 TATCGAGAGTCTTTTAAGCTAGTAGATTTAGT 5 204 0 TGAATGCTAACTTTTTTACGAGGAGGGCAGCG 6 19 0 TACTTATGCTATTTTCTAATAGCTTCCTGTAG 10 64 1 ACGTATTCTAATTTTGAAATAGAGGTACAAAG 10 277 1 AACTGATTCGATATTAAACTAGTAAAGAAAGT 11 251 1 AATAGTTTAGATTTTTGAAGAGTTTTTAGCAA 12 124 1 AGAGTAAGTGATTTTCTGATAGAAAACTATTA 13 45 1 AGAATCAATGATTTTTTAATAGTTTTCTATCA 13 61 0 ***** ***** MAP Score: 13.3443 Motif 4 AATCGAGGCTCTTCTAAAAGACATAGTAAGA 0 92 1 GAGAAAGCCCTCACAAAAAAACCCATTCTCG 2 61 0 ACGTTATCTATTTCAAAATTATCGTGACCTA 2 127 0 GATAAAAAATTCTCTAAAACACCTTGGTATA 2 174 0 AAAAAATACAAAAACAAAAAAATCAA 3 5 1 AGTACTACAATTACAAAAATAAAAGATTAAT 5 10 1 GATTATTAAATTTCTAAATAAAAACAAAAAT 5 66 1 GCACTTCGATTTCTAAAAAATAATCAAAAA 9 9 1 TGTACCTCTATTTCAAAATTAGAATACGTTA 10 275 0 ACTTAGAATTTTTCAAAAATAATTTAATGAG 11 169 0 AGTGTCTAAGATTCAAAAAGAGACTCTTTCT 11 197 1 AGACTCTTTCTTTCAATAAAATCGCTAGATC 11 217 1 ********* * MAP Score: 8.61242 Motif 5 TACTAGCTTAAAAGACTCTCGATATAAAAT 5 212 1 GATTGATCGTCAAGAGTCTATAGAAAAAAT 5 256 0 AAAACCTGACAACGAGTCTCCGTATA 8 6 0 ATTGCTTTACAAAGACACTCGCATCTTTCC 11 13 1 AAAATAATTTAATGAGTCTAAAAAGATAGA 11 155 0 TTATTGAAAGAAAGAGTCTCTTTTTGAATC 11 206 0 CTATGATACTAAAGACTCTAGTCGTTGCTA 12 150 0 AACAGGAAAGCCTCTCTAGAGAATTC 13 6 1 ********** MAP Score: 7.1443 Motif 6 CGACCTAATCTTTAGAGAAGATAGAAGTTA 4 180 1 ACCAAGGTGTTTTAGAGAATTTTTTATCTG 2 177 1 GGAAAGCCTCTCTAGAGAATTCAGTGACTT 13 14 1 TTAAAAGCAGTTTAGATAAACATAAAAAAT 3 119 1 GCTCCTACAATCAAGAGAAGAATGCGGGGC 4 29 1 CCCGAGAAGGTCAAGAGAATTTAGCACTCG 6 58 0 ATTCAGTGACTTTAGAGTAAGTGATTTTCT 13 32 1 AAAACATTGATCTAGAAAAATCCCTGTGTT 5 152 1 TCGTCAAGAGTCTATAGAAAAAATTACAGG 5 250 0 TATTATTGTGTTTATAGAAGGCCAGAGATT 0 127 1 GTAAAAAATATTTAGAAAATACAAA 0 5 0 ATGCGTTGAATTAAGATAAAATGCTGGAAT 11 124 0 TCACATCACATCAAGACAAATGAATTATTT 10 35 1 ATATTTTATTTTTAGATTAAAATTAGTTTA 3 74 0 AGTTGTGGCATTTAGACTAGTTGCGGCGTT 4 112 1 TAAACAATTATTTATATAATATTTTATTTT 3 92 0 AAAAAACTTATTAAGAATAAACTAATTTTA 3 57 1 ********** MAP Score: 6.99207 Motif 7 AGTGGTACAATCGAGGCTCTTCTAAAAGACAT 0 84 1 TTCCCATTTATAAAACCCATTCTCAGGCTCTC 2 24 1 TAACGTATTATACAAGCTATTGCAAGAGAGAA 2 87 0 AGGCACCCCTTCCTACCTCTACCCTAGCCGAA 4 76 0 ATTCTCAGCGTACAATCTTTTCTTTATTGTTA 4 231 1 TAGAAAAAATTACAGGCTATTGCGATTTTATA 5 234 0 TAATTTTTTCTATAGACTCTTGACGATCAATC 5 254 1 ATTCGAGTGCTAAATTCTCTTGACCTTCTCGG 6 55 1 GGTCGTGAGTTCAAGCCTCATCACCCGCTTTT 12 40 0 TCTTCAAAAATCTAAACTATTCTTTTCTTTGC 12 113 0 TAGTCGTTGCTAAAAACTCTTCAAAAATCTAA 12 130 0 TCTATGATACTAAAGACTCTAGTCGTTGCTAA 12 149 0 TCATAGAAATTCGTGTCTCTTCCCCCTGAGAA 12 174 1 AAAAATTTTATCAAAGCCCTTCTCAGGGGGAA 12 193 0 ** ** ****** MAP Score: 6.94964 Motif 8 AGGGATAGTTGAATCGATTCGGAAGCAACAA 0 36 0 ATGTCTTTTAGAAGAGCCTCGATTGTACCAC 0 85 0 CCCATTTATAAAACCCATTCTCAGGCTCTCA 2 26 1 CCTCACAAAAAAACCCATTCTCGGGCTTGAG 2 53 0 AGAATGCGGGGCAGCCATTCTTTAATACGTT 4 47 1 TACTAGCTTAAAAGACTCTCGATATAAAATC 5 212 1 ACTGAAGATAACAGCCCCACTCT 5 286 1 TACCCTATAAAAATCCTTTCGGTAGAGTCAA 9 107 1 ATTGCTTTACAAAGACACTCGCATCTTTCCC 11 13 1 TAAGATTCAAAAAGAGACTCTTTCTTTCAAT 11 203 1 CTATGATACTAAAGACTCTAGTCGTTGCTAA 12 149 0 TTCTCAGGGGGAAGAGACACGAATTTCTATG 12 175 0 AAATTTTATCAAAGCCCTTCTCAGGGGGAAG 12 192 0 AACAGGAAAGCCTCTCTAGAGAATTCA 13 6 1 ****** **** MAP Score: 6.31472 Motif 9 CTTCAAGGGATAGTTGAATCGATTCGGAAGCAACA 0 37 0 TTACTATGTCTTTTAGAAGAGCCTCGATTGTACCA 0 86 0 GATTTCCCATTTATAAAACCCATTCTCAGGCTCTC 2 21 1 TTGCAATAGCTTGTATAATACGTTATGCTTTCCTA 2 94 1 GGGGCAGCCATTCTTTAATACGTTCGGCTAGGGTA 4 54 1 AGCCTGTAATTTTTTCTATAGACTCTTGACGATCA 5 248 1 AAGAATACCCTATAAAAATCCTTTCGGTAGAGTCA 9 102 1 ACTTATGCTATTTTCTAATAGCTTCCTGTAGATTA 10 65 1 AAAATTGCTTTACAAAGACACTCGCATCTTTCC 11 8 1 GTGTCTAAGATTCAAAAAGAGACTCTTTCTTTCAA 11 198 1 ATAGTTTAGATTTTTGAAGAGTTTTTAGCAACGAC 12 125 1 ATGAAAAATTTTATCAAAGCCCTTCTCAGGGGGAA 12 193 0 AGTAAGCAGATTATATTATCCACTCTTATTCCAGA 12 254 1 GAATCAATGATTTTTTAATAGTTTTCTATCAGAAA 13 57 0 ** * ** ** *** MAP Score: 5.60168 Motif 10 AATCTTCTTACTATGTCTTTTAGAAGAGCCTCGAT 0 93 0 CAGAGATTTGTTATTTATTGCGTAATAATAAGGTA 0 149 1 TGTGAGGGCTTTCTCTCTTGCAATAGCTTGTATAA 2 77 1 GCATCTAACGTTATCTATTTCAAAATTATCGTGAC 2 130 0 TGAATTATGATTATCGATTTCAAAAGGTTTTGCAG 3 184 0 CCGCATTCTTCTCTTGATTGTAGGAGCAATCTTCA 4 21 0 ATACCATAACTTCTATCTTCTCTAAAGATTAGGTC 4 181 0 GTACAATCTTTTCTTTATTGTTAGATAGGTGGTGC 4 240 1 GCTCTATCTTATCGATCCTAAAGCTT 4 284 0 GGGGTCAGGATTATGTATTATTTTAATTATATTTT 5 92 0 TTATAGGGTATTCTTGGTTGCGATAGTATCGGTCA 9 82 0 AAGACTGAAATTCTGGCTTTTATGTCAGAATGCCG 10 236 1 TTCAACGCATTTCTATCTTTTTAGACTCATTAAAT 11 144 1 CAAAAAGAGACTCTTTCTTTCAATAAAATCGCTAG 11 210 1 **** **** * * MAP Score: 5.52929 Motif 11 TTTGTTATTTATTGCGTAATAATAAGGTAATG 0 155 1 TATACAAGCTATTGCAAGAGAGAAAGCCCTCA 2 79 0 GGTCACGATAATTTTGAAATAGATAACGTTAG 2 129 1 TATATAAATAATTGTTTAAAAGCAGTTTAGAT 3 104 1 TCTTTTCTTTATTGTTAGATAGGTGGTGCCTT 4 246 1 AGATTATTAAATTTCTAAATAAAAACAAAAAT 5 65 1 GCACTTCGATTTCTAAAAAATAATCAAAAA 9 8 1 ACGTATTCTAATTTTGAAATAGAGGTACAAAG 10 277 1 AAAATTGCTTTACAAAGACACTCGC 11 3 1 TCATTAAATTATTTTTGAAAAATTCTAAGTGT 11 170 1 AATAGTTTAGATTTTTGAAGAGTTTTTAGCAA 12 124 1 AGAATCAATGATTTTTTAATAGTTTTCTATCA 13 61 0 ****** ** ** MAP Score: 4.49721 Motif 12 TAATACGTTATGCTTTCCTAGGTCACGATAA 2 109 1 AAGAATCCTATGCTTTGCTATATACAAGTCT 3 155 1 TGTAGGAGCAATCTTCACAATTGCTGGC 4 7 0 CTGCCCCGCATTCTTCTCTTGATTGTAGGAG 4 30 0 TAGGAAGGGGTGCCTTGCTAGTTGTGGCATT 4 93 1 CATAACTTCTATCTTCTCTAAAGATTAGGTC 4 181 0 TCAGCGTACAATCTTTTCTTTATTGTTAGAT 4 235 1 AGATAGGTGGTGCCTTGCATATAAGCTTTAG 4 262 1 GTAGAGCTGTAGCCTTCCAAGCTACCGGTGT 10 168 1 AAAATTGCTTTACAAAGACACTCGCA 11 5 1 CTTGATAACTTTCTTTACTAGTTTAATATCG 11 259 0 TCACCCGCTTTTCCTTTCAAGTCTAATAAAA 12 21 0 ATCTAAACTATTCTTTTCTTTGCGGGTGTAG 12 105 0 AACAGGAAAGCCTCTCTAGAGAATTCAGT 13 8 1 ****** **** MAP Score: 4.3491 Motif 13 TACAATCGAGGCTCTTCTAAAAGACATAGT 0 89 1 AATACGTTATGCTTTCCTAGGTCACGATAA 2 110 1 AGGAAGGGGTGCCTTGCTAGTTGTGGCATT 4 94 1 TTTGATCGCTGCCCTCCTCGTAAAAAAGTT 6 13 1 AAATTCTCTTGACCTTCTCGGGTTCTTTTC 6 66 1 TAGAGCTGTAGCCTTCCAAGCTACCGGTGT 10 169 1 TTGAACTCACGACCTTCACGTTGGCAACGT 12 58 1 TTTTATCAAAGCCCTTCTCAGGGGGAAGAG 12 190 0 AACAGGAAAGCCTCTCTAGAGAATTCAGT 13 9 1 ********** MAP Score: 2.97484 Motif 14 TCCCATTTATAAAACCCATTCTCAGGCTCTCAA 2 25 1 CCCTCACAAAAAAACCCATTCTCGGGCTTGAGA 2 52 0 ATCTATTTCAAAATTATCGTGACCTAGGAAAGC 2 120 0 AGATAACGTTAGATGCCTGTATCAGTATACCAA 2 149 1 GGTGTTTTAGAGAATTTTTTATCTGATTCCATT 2 182 1 AAAAGTGGTGAAAAATCAGTATCAAATGGAATC 2 206 0 TTCGAGTGCTAAATTCTCTTGACCTTCTCGGGT 6 56 1 AAATAATCAAAAATTTCAGTAACTTATGAAAGA 9 27 1 TAGCCTTCCAAGCTACCGGTGTCAGTTCGATTC 10 177 1 TTTCAAAATTAGAATACGTTAACAACGGCATTC 10 263 0 GTCAAGGGAAAGATGCGAGTGTCTTTGTAAAGC 11 16 0 CAAGTCTAATAAAAAGGGTTGTCTT 12 2 0 TTAGTATCATAGAAATTCGTGTCTCTTCCCCCT 12 168 1 ACAAGTAAGCAGATTATATTATCCACTCTTATT 12 251 1 GCCTCTCTAGAGAATTCAGTGACTTTAGAGTAA 13 19 1 **** * ***** MAP Score: 0.894472