AlignACE 3.0 10/20/99 AlignACE2 -i AA/AA_fusions001_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944234286 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 aq_250 46 putative protein #1 kdtB 300 lipopolysaccharide core biosynthesis protein #2 carA 300 carbamoyl phosphate synthetase small subunit #3 aq_811 66 putative protein #4 carB1 300 carbamoyl-phosphate synthase large subunit #5 accC2 300 biotin carboxylase #6 icd 113 isocitrate dehydrogenase #7 aq_1515 25 putative protein #8 aq_1516 58 putative protein #9 pycA 23 pyruvate carboxylase c-terminal domain #10 oadA 43 oxaloacetate decarboxylase alpha chain #11 aq_1666 252 hypothetical protein #12 argF 44 ornithine carbamoyltransferase #13 carB2 26 carbamoyl-phosphate synthase large subunit Motif 1 AAATAAGCTGGAAGAGGGTGGAGTGTTCATCCT 1 208 1 TGTTTCTAATGTACCGTGTGGAGTTAAAACTTC 2 46 1 TGTTTCTAATGTACCGTGTGGAGTTAAAACAGG 2 113 1 AGTTTCTAATGTACCGTGTGGAGTTAAAACAAG 2 178 1 GGTTTCTAATGTACCGTGTGGAGTTAAAACGCA 2 243 1 TGTGAAGGAAGAAGGCTGTGAAGTTGACTTAAC 4 69 1 TGGAAGAAATAGACAGCGTGGAGTACGGAGGAG 4 257 1 TCATTTTGAAGAAGTGTGTCAAGTTAATTTAAA 6 58 0 ATAAAAGCGGGAAAAGAGGGGAGA 11 1 0 AAATTTAATAGTAGAGAGGTGAGAAAGCCCCTC 11 161 1 TCGGTGGAGGGAGGTGGGGGGAGGGAGGGGCTT 11 185 0 CGGGAGGCCAAAAATCGGTGGAGGGAGGTGGGG 11 199 0 * ** * ****** MAP Score: 28.2675 Motif 2 TTTCCTTATTGAAAGGAGGAGGAG 0 32 1 CGGAAAGGAGGGTGCAAAGGTCAT 1 2 1 TGTCGTAAATGTAAGGAGGGTCCGCAAATATC 1 148 0 TAACGCACCCGAAGAGAGGAAATACGGTGATA 1 265 1 CTACATTTTAAACAGGAGGGGCTAAA 3 50 1 ATGTTGTGAAGGAAGAAGGCTGTGAAGTTGAC 4 65 1 ACAGCGTGGAGTACGGAGGAGAATAAGTATAA 4 269 1 TTATTCCCTAACAAGGAGGTCATAA 7 10 1 AAACTTTAAAGGAGGTAATATAG 9 6 1 ATAAAAGCGGGAAAAGAGGGGAGA 11 2 0 AAATTTAATAGTAGAGAGGTGAGAAAGCCCCT 11 161 1 GGAGGTGGGGGGAGGGAGGGGCTTTCTCACCT 11 177 0 AAAAATCGGTGGAGGGAGGTGGGGGGAGGGAG 11 191 0 GGGCCTCCCGGGCGGGAGGCCAAAAATCGGTG 11 212 0 AAGAAGTTCTAAAAGGAGGAGAAATCC 12 5 0 * ******* ** MAP Score: 23.572 Motif 3 AGAAAAGAACAGGAAACTTGCAAACGAAATAAAGA 1 40 1 GACAAGTACGACGAACTTATAAAACTTGCCCTAAA 1 176 1 TAACTCCACACGGTACATTAGAAACAGAACTCTCA 2 37 0 TAACTCCACACGGTACATTAGAAACAATAATCAAC 2 104 0 TAACTCCACACGGTACATTAGAAACTTCGTCAAGC 2 169 0 TAACTCCACACGGTACATTAGAAACCATCTGCAAC 2 234 0 TGGAGTTAAAACGCAGATTGTAAAAAGAAATTAAA 2 261 1 TTAAATAGAGAACTACATTTTAAACAGGAGGGGCT 3 38 1 GTTGACTTAACACCCGGTTACAAACCTCAGTATCC 4 91 1 TCCGTACGTGAAGATCGTTTACAAAACTGGAGACG 4 123 1 TAAAGAAATAAAGGAATTTGTAACCTTTGCAATAG 4 213 1 CGCCCTATTCCGGCTCCTTGGCAACTGAATAGGGA 5 225 0 GAAGTGTGTCAAGTTAATTTAAAACACTTTTTGAT 6 46 0 CTCAGGTCTCCGAGCTTATAAAACAAAAAGAGTC 8 34 0 CTATCACCTCACCAGCTTTAAAAACTAATAATATA 10 17 0 TCTTCATTCTCCGTAGTTTTCAAACCATTGACAGT 11 91 0 GGGGGGAGGGAGGGGCTTTCTCACCTCTCTACTAT 11 168 0 CCCGCCCGGGAGGCCCTTTCTAAAATAAATAGCG 11 228 1 *** * ** **** MAP Score: 21.5461 Motif 4 TCCTTATTGAAAGGAGGAGGAG 0 34 1 CGGAAAGGAGGGTGCAAAGGT 1 1 1 TCGTAGAAAAGAACAGGAAACTTGCAAACG 1 36 1 CTTTTTTGAGAAACTGGAAGGGTAAAGCCC 1 114 1 TGCCCTAAATAAGCTGGAAGAGGGTGGAGT 1 202 1 AAGCTGGAAGAGGGTGGAGTGTTCATCCTT 1 212 1 ACGCACCCGAAGAGAGGAAATACGGTGATA 1 267 1 TTGATTTTGTGAAATGGAAGAAGTTTTAAC 2 68 0 ACTACATTTTAAACAGGAGGGGCTAAA 3 49 1 GAACTGGAAGACTTACCGGT 4 0 1 ATCGTTTACAAAACTGGAGACGGAGACCTT 4 136 1 AGCGTGGAGTACGGAGGAGAATAAGTATAA 4 271 1 AAACTTTAAAGGAGGTAATATAG 9 8 1 TTAGTTTTTAAAGCTGGTGAGGTGATAGC 10 24 1 AAGCGGGAAAAGAGGGGAGA 11 0 0 GGATTAATAAAAGCGGGAAAAGAGGGGAGA 11 10 0 ATTTAATAGTAGAGAGGTGAGAAAGCCCCT 11 163 1 GGGAGGTGGGGGGAGGGAGGGGCTTTCTCA 11 180 0 AAATCGGTGGAGGGAGGTGGGGGGAGGGAG 11 191 0 AGGGCCTCCCGGGCGGGAGGCCAAAAATCG 11 215 0 GAAGTTCTAAAAGGAGGAGAAATCC 12 5 0 ********** MAP Score: 18.5259 Motif 5 AGTTTCGCTCAGATTATATTTTTTTCCTTATTGAAA 0 7 1 TATTTGCGGACCCTCCTTACATTTACGACAAGTACGACG 1 150 1 GTTTTAACTCCACACGGTACATTAGAAACAGAACTCTCA 2 37 0 GTTTTAACTCCACACGGTACATTAGAAACAATAATCAAC 2 104 0 GTTTTAACTCCACACGGTACATTAGAAACTTCGTCAAGC 2 169 0 GTTTTAACTCCACACGGTACATTAGAAACCATCTGCAAC 2 234 0 AAATGTAGTTCTCTATTTAAAATATTCACTAACTTATAA 3 19 0 CTCTATCAATAACTTATTAGACTTCTTACCTTCACGAAA 5 39 1 GCCCGGGAGGCCCTTTCTAAAATAAATAGCG 11 231 1 CTCACTGTTTATACTATATACTTTAA 13 2 1 * ** ** * ** ** MAP Score: 15.7552 Motif 6 TTCCTTATTGAAAGGAGGAGGAG 0 33 1 CGGAAAGGAGGGTGCAAAGGTCATTT 1 3 1 ATTTTCGTAGAAAAGAACAGGAAACTTGCAAAC 1 32 1 AGTTTCTCAAAAAAGAAAGGGCATCCCCGACAA 1 96 0 TTAACGCACCCGAAGAGAGGAAATACGGTGATA 1 264 1 CAGAACTCTCAGAAGAACCGAGAGCTTTTTCTA 2 15 0 GCAGATTGTAAAAAGAAATTAAAATAAAAACTC 2 273 1 GACCTTTTTGAGAAGAAGATAGAAATACCACCC 4 160 1 TTAAAGAAATAAAGGAATTTGTAACCTTTGCAA 4 212 1 ATTCAGTTGCCAAGGAGCCGGAATAGGGCGAAA 5 230 1 TATTCCCTAACAAGGAGGTCATAA 7 11 1 TTATAAAACAAAAAGAGTCCGAAAGAAAGACAC 8 20 0 AAACTTTAAAGGAGGTAATATAG 9 7 1 TAAAAGCGGGAAAAGAGGGGAGA 11 0 0 AGAAGTTCTAAAAGGAGGAGAAATCC 12 3 0 ******* ** * MAP Score: 14.4144 Motif 7 TTTTGAGAAACTGGAAGGGTAAAGCCCACGTGATATTTGC 1 117 1 TTAACGCACCCGAAGAGAGGAAATACGGTGATACAGTATT 1 264 1 TCTAATGTACCGTGTGGAGTTAAAACTTCTTCCATTTCAC 2 50 1 TCTAATGTACCGTGTGGAGTTAAAACAGGTTTGAGAGGAC 2 117 1 TCTAATGTACCGTGTGGAGTTAAAACAAGGTTTTGAAGCT 2 182 1 TCTAATGTACCGTGTGGAGTTAAAACGCAGATTGTAAAAA 2 247 1 ATTTAATAGTAGAGAGGTGAGAAAGCCCCTCCCTCCCCCC 11 163 1 GCCTCCCGGGCGGGAGGCCAAAAATCGGTGGAGGGAGGTG 11 202 0 ** * ** * ** * * MAP Score: 14.1249 Motif 8 CACGACAAGAAAAAGAACTTTAACGCACCCGAA 1 245 1 TTGTGAAATGGAAGAAGTTTTAACTCCACACGG 2 59 0 AAGTCCTCTCAAACCTGTTTTAACTCCACACGG 2 126 0 TCAGCTTCAAAACCTTGTTTTAACTCCACACGG 2 191 0 TCTTTTTACAATCTGCGTTTTAACTCCACACGG 2 256 0 TTAAATAGAGAACTACATTTTAAACAGGAGGGG 3 38 1 TGAGGTTTGTAACCGGGTGTTAAGTCAACTTCA 4 87 0 TACCTTCACGAAACGAATGTTAATTTCCGCTAA 5 65 1 AATTATACCTAAAAAAATTTTAAACTTATTAAT 5 276 1 ACAAAAATCAAAAAGTGTTTTAAATTAACTTGA 6 40 1 GAGAACTTGCAAAAAAATTTCAATTGCATAAAT 11 132 1 AAAAGATATTTTAAAATAAGAAGT 12 30 0 *** ******* MAP Score: 11.8487 Motif 9 TTCGCTCAGATTATATTTTTTTCCTTATTGAAA 0 13 1 AGGGCAAGTTTTATAAGTTCGTCGTACTTGTCG 1 175 0 CTTCGGGTGCGTTAAAGTTCTTTTTCTTGTCGT 1 246 0 CCGTGTGGAGTTAAAACTTCTTCCATTTCACAA 2 59 1 CACGGTACATTAGAAACTTCGTCAAGCTTTACC 2 163 0 AGAGTTTTTATTTTAATTTCTTTTTACAATCTG 2 274 0 AGATATTGACTTGGAAGTTTGTTTTGACGATGT 4 36 1 CCTTCTTCCTTCACAACATCGTCAAAACAAACT 4 51 0 CGGGTGGTATTTCTATCTTCTTCTCAAAAAGGT 4 161 0 ATTGCAAAGGTTACAAATTCCTTTATTTCTTTA 4 213 0 ATTAATAAGTTTAAAATTTTTTTAGGTATAATT 5 276 0 TAAAACACTTTTTGATTTTTGTTATAAATCTCT 6 29 0 TTGCAAGTTCTCCTAACTTCTTCATTCTCCGTA 11 111 0 ATTTATGCAATTGAAATTTTTTTGCAAGTTCTC 11 132 0 TCTCCTCCTTTTAGAACTTCTTATTTTAAAATA 12 15 1 ACTTCTTATTTTAAAATATCTTTT 12 30 1 ** ** ****** MAP Score: 11.5434 Motif 10 CGGAAAGGAGGGTGCAAAGGTCATTTTC 1 6 1 TAACGCACCCGAAGAGAGGAAATACGGTGATA 1 265 1 AATGTACCGTGTGGAGTTAAAACTTCTTCCAT 2 53 1 AATGTACCGTGTGGAGTTAAAACAGGTTTGAG 2 120 1 AATGTACCGTGTGGAGTTAAAACAAGGTTTTG 2 185 1 AATGTACCGTGTGGAGTTAAAACGCAGATTGT 2 250 1 GAGTTAAAACGCAGATTGTAAAAAGAAATTAA 2 263 1 ATAAGTTAGTGAATATTTTAAATAGAGAACTA 3 21 1 TTTTTGAGAAGAAGATAGAAATACCACCCGAA 4 164 1 TCATTTTGAAGAAGTGTGTCAAGTTAATTTAA 6 59 0 TCCTCCGAAAGTAGAGTGTAATTTTATTCATT 6 86 0 TTCATTCTCCGTAGTTTTCAAACCATTGACAG 11 92 0 * ****** *** MAP Score: 9.95306 Motif 11 TTTCAATAAGGAAAAAAATATAATCTGAGCGAAACT 0 8 0 AATAAAGAAGAAAACTAAGGGAAAGGTAATTGTCGGGG 1 67 1 ACGAACTTATAAAACTTGCCCTAAATAAGCTGGAAGAG 1 186 1 GCACGACAAGAAAAAGAACTTTAACGCACCCGAAGAGA 1 244 1 GTGTGGAGTTAAAACTTCTTCCATTTCACAAAATCAAA 2 61 1 CGCAGATTGTAAAAAGAAATTAAAATAAAAACTCTAAT 2 272 1 AACATCGTCAAAACAAACTTCCAAGTCAATATCTACAC 4 32 0 CGAAATACTCAAAAAAGACATTAAAGAAATAAAGGAAT 4 192 1 AATCAAGTATGAAAACTTTATAAAGGCATACTCAATTT 5 112 0 AATTATACCTAAAAAAATTTTAAACTTATTAATT 5 276 1 AACAAAAATCAAAAAGTGTTTTAAATTAACTTGACACA 6 39 1 CTTATAAAACAAAAAGAGTCCGAAAGAAAGACACGAGC 8 16 0 CAATGGTTTGAAAACTACGGAGAATGAAGAAGTTAGGA 11 96 1 GAGAACTTGCAAAAAAATTTCAATTGCATAAATTTAAT 11 132 1 AAAAGATATTTTAAAATAAGAAGTTCTAA 12 25 0 ***** * ** * * MAP Score: 9.69657 Motif 12 TGAACACTCCACCCTCTTCCAGCTTATTTAG 1 206 0 GTGGAGTTAAAACTTCTTCCATTTCACAAAA 2 63 1 TCTTCCATTTCACAAAATCAAAGAGTTGTTG 2 77 1 TACATTAGAAACAATAATCAACAACTCTTTG 2 95 0 GTACATTAGAAACTTCGTCAAGCTTTACCTC 2 161 0 AACCATCTGCAACATATTCAAGTTCAGCTTC 2 216 0 TTCTCTATTTAAAATATTCACTAACTTATAA 3 19 0 CATCGTCAAAACAAACTTCCAAGTCAATATC 4 37 0 CTTCCTTCACAACATCGTCAAAACAAACTTC 4 49 0 ATCATTTCATCACATCATCAAAGCATCGCTT 5 181 1 GCTTATTAGACCCATCATCCCTATTCAGTTG 5 208 1 TAACTTGACACACTTCTTCAAAATGAATAAA 6 65 1 CTATATTACCTCCTTTAAAGTTT 9 5 0 GTGAGAAAGCCCCTCCCTCCCCCCACCTCCC 11 179 1 CCCTCCCCCCACCTCCCTCCACCGATTTTTG 11 193 1 ****** **** MAP Score: 2.67425 Motif 13 TTTCCTTATTGAAAGGAGGAGGAG 0 32 1 CTTGCAAACGAAATAAAGAAGAAAACTAAGG 1 56 1 AGTTTCTCAAAAAAGAAAGGGCATCCCCGAC 1 98 0 ACTTGTCGTAAATGTAAGGAGGGTCCGCAAA 1 152 0 CTTGAGCACGACAAGAAAAAGAACTTTAACG 1 239 1 GTTAATAGAAAAAGCTCTCGGTTC 2 3 1 GATTTTGTGAAATGGAAGAAGTTTTAACTCC 2 65 0 CCATTTCACAAAATCAAAGAGTTGTTGATTA 2 81 1 TGAATATTTTAAATAGAGAACTACATTTTAA 3 30 1 CTACATTTTAAACAGGAGGGGCTAAA 3 50 1 ACGATGTTGTGAAGGAAGAAGGCTGTGAAGT 4 62 1 ACAGCGTGGAGTACGGAGGAGAATAAGTATA 4 269 1 TCGTTTCGTGAAGGTAAGAAGTCTAATAAGT 5 50 0 TTTATAACAAAAATCAAAAAGTGTTTTAAAT 6 34 1 ATTTTATTCATTTTGAAGAAGTGTGTCAAGT 6 67 0 CCGAGCTTATAAAACAAAAAGAGTCCGAAAG 8 28 0 AAAAGCGGGAAAAGAGGGGAGA 11 1 0 AAACTACGGAGAATGAAGAAGTTAGGAGAAC 11 107 1 GGAGGCCAAAAATCGGTGGAGGGAGGTGGGG 11 199 0 AAGAAGTTCTAAAAGGAGGAGAAATCC 12 6 0 AAGATATTTTAAAATAAGAAGTTCTAAAAGG 12 21 0 *** ******* MAP Score: 1.47402