AlignACE 3.0 10/20/99 AlignACE2 -i AA/AA_fusions001_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944234309 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 thrS 36 threonyl-tRNA synthetase #13 argF 44 ornithine carbamoyltransferase #14 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: 28.1011 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 13 5 0 * ******* ** MAP Score: 23.3571 Motif 3 TCTTTATTTCGTTTGCAAGTTTCCTGTTCTTTTCT 1 40 0 TTTAGGGCAAGTTTTATAAGTTCGTCGTACTTGTC 1 176 0 TGAGAGTTCTGTTTCTAATGTACCGTGTGGAGTTA 2 37 1 GTTGATTATTGTTTCTAATGTACCGTGTGGAGTTA 2 104 1 GCTTGACGAAGTTTCTAATGTACCGTGTGGAGTTA 2 169 1 GTTGCAGATGGTTTCTAATGTACCGTGTGGAGTTA 2 234 1 TTTAATTTCTTTTTACAATCTGCGTTTTAACTCCA 2 261 0 AGCCCCTCCTGTTTAAAATGTAGTTCTCTATTTAA 3 38 0 GGATACTGAGGTTTGTAACCGGGTGTTAAGTCAAC 4 91 0 CGTCTCCAGTTTTGTAAACGATCTTCACGTACGGA 4 123 0 CTATTGCAAAGGTTACAAATTCCTTTATTTCTTTA 4 213 0 TCCCTATTCAGTTGCCAAGGAGCCGGAATAGGGCG 5 225 1 ATCAAAAAGTGTTTTAAATTAACTTGACACACTTC 6 46 1 GACTCTTTTTGTTTTATAAGCTCGGAGACCTGAG 8 34 1 TATATTATTAGTTTTTAAAGCTGGTGAGGTGATAG 10 17 1 ACTGTCAATGGTTTGAAAACTACGGAGAATGAAGA 11 91 1 ATAGTAGAGAGGTGAGAAAGCCCCTCCCTCCCCCC 11 168 1 CGCTATTTATTTTAGAAAGGGCCTCCCGGGCGGG 11 228 0 **** ** * *** MAP Score: 21.3133 Motif 4 CTCCTCCTCCTTTCAATAAGGA 0 34 0 ACCTTTGCACCCTCCTTTCCG 1 1 0 CGTTTGCAAGTTTCCTGTTCTTTTCTACGA 1 36 0 GGGCTTTACCCTTCCAGTTTCTCAAAAAAG 1 114 0 ACTCCACCCTCTTCCAGCTTATTTAGGGCA 1 202 0 AAGGATGAACACTCCACCCTCTTCCAGCTT 1 212 0 TATCACCGTATTTCCTCTCTTCGGGTGCGT 1 267 0 GTTAAAACTTCTTCCATTTCACAAAATCAA 2 68 1 TTTAGCCCCTCCTGTTTAAAATGTAGT 3 49 0 ACCGGTAAGTCTTCCAGTTC 4 0 0 AAGGTCTCCGTCTCCAGTTTTGTAAACGAT 4 136 0 TTATACTTATTCTCCTCCGTACTCCACGCT 4 271 0 CTATATTACCTCCTTTAAAGTTT 9 8 0 GCTATCACCTCACCAGCTTTAAAAACTAA 10 24 0 TCTCCCCTCTTTTCCCGCTT 11 0 1 TCTCCCCTCTTTTCCCGCTTTTATTAATCC 11 10 1 AGGGGCTTTCTCACCTCTCTACTATTAAAT 11 163 0 TGAGAAAGCCCCTCCCTCCCCCCACCTCCC 11 180 1 CTCCCTCCCCCCACCTCCCTCCACCGATTT 11 191 1 CGATTTTTGGCCTCCCGCCCGGGAGGCCCT 11 215 1 GGATTTCTCCTCCTTTTAGAACTTC 13 5 1 ********** MAP Score: 18.2062 Motif 5 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 13 3 0 ******* ** * MAP Score: 14.2063 Motif 6 CGGAAAGGAGGGTGCAAAGGTCATTTTCGTAGAAA 1 5 1 TTTTGAGAAACTGGAAGGGTAAAGCCCACGTGATATTTGC 1 117 1 TTAACGCACCCGAAGAGAGGAAATACGGTGATACAGTATT 1 264 1 TCTAATGTACCGTGTGGAGTTAAAACTTCTTCCATTTCAC 2 50 1 TCTAATGTACCGTGTGGAGTTAAAACAGGTTTGAGAGGAC 2 117 1 TCTAATGTACCGTGTGGAGTTAAAACAAGGTTTTGAAGCT 2 182 1 TCTAATGTACCGTGTGGAGTTAAAACGCAGATTGTAAAAA 2 247 1 TGAGGTTTGTAACCGGGTGTTAAGTCAACTTCACAGCCTT 4 80 0 AAGGAGCCGGAATAGGGCGAAAAGCCTTTTTTTATAATTA 5 241 1 ATTTAATAGTAGAGAGGTGAGAAAGCCCCTCCCTCCCCCC 11 163 1 GCCTCCCGGGCGGGAGGCCAAAAATCGGTGGAGGGAGGTG 11 202 0 ** * ** * ** * * MAP Score: 13.7065 Motif 7 TTCCTTATTGAAAGGAGGAGGAG 0 33 1 GATTTTGTGAAATGGAAGAAGTTTTAACTCC 2 65 0 ACGATGTTGTGAAGGAAGAAGGCTGTGAAGT 4 62 1 CAGCGTGGAGTACGGAGGAGAATAAGTATAA 4 270 1 TAGAACAATTTATGGAAGAAATAGACAGCGT 4 245 1 AGAAGTTCTAAAAGGAGGAGAAATCC 13 5 0 AAAATCGGTGGAGGGAGGTGGGGGGAGGGAG 11 191 0 AACGCACCCGAAGAGAGGAAATACGGTGATA 1 266 1 GCAAACGAAATAAAGAAGAAAACTAAGGGAA 1 59 1 ACACTCTACTTTCGGAGGAGAGCG 6 99 1 AAACTTTAAAGGAGGTAATATAG 9 7 1 CCCTAAATAAGCTGGAAGAGGGTGGAGTGTT 1 204 1 AAACTACGGAGAATGAAGAAGTTAGGAGAAC 11 107 1 GGAGACCTTTTTGAGAAGAAGATAGAAATAC 4 157 1 CTCCTTTCAATAAGGAAAAAAATATAATCTG 0 19 0 TCGTTTCGTGAAGGTAAGAAGTCTAATAAGT 5 50 0 AATTTAATAGTAGAGAGGTGAGAAAGCCCCT 11 162 1 ATTTTATTCATTTTGAAGAAGTGTGTCAAGT 6 67 0 GTTAATAGAAAAAGCTCTCGGTTC 2 3 1 AAGATATTTTAAAATAAGAAGTTCTAAAAGG 13 21 0 ** ******** MAP Score: 12.395 Motif 8 CTCCTCCTCCTTTCAATAAGGA 0 34 0 TTCCCTTAGTTTTCTTCTTTATTTCGTTTGCA 1 58 0 TATCACCGTATTTCCTCTCTTCGGGTGCGTTA 1 265 0 ATGGAAGAAGTTTTAACTCCACACGGTACATT 2 53 0 CTCAAACCTGTTTTAACTCCACACGGTACATT 2 120 0 CAAAACCTTGTTTTAACTCCACACGGTACATT 2 185 0 ACAATCTGCGTTTTAACTCCACACGGTACATT 2 250 0 CTTCACAGCCTTCTTCCTTCACAACATCGTCA 4 60 0 CTTATTCTCCTCCGTACTCCACGCTGTCTATT 4 264 0 TTATTAGACTTCTTACCTTCACGAAACGAATG 5 52 1 ACTTAAAGATTTTACCTCTAGAGATTTATAA 6 9 1 TTATGACCTCCTTGTTAGGGAAT 7 12 0 CTATATTACCTCCTTTAAAGTTT 9 8 0 GCTATCACCTCACCAGCTTTAAAA 10 29 0 TCTCCCCTCTTTTCCCGCTTTT 11 0 1 TTGCAAGTTCTCCTAACTTCTTCATTCTCCGT 11 112 0 GGAGGGGCTTTCTCACCTCTCTACTATTAAAT 11 163 0 GTGAGAAAGCCCCTCCCTCCCCCCACCTCCCT 11 179 1 CCCTCCCCCCACCTCCCTCCACCGATTTTTGG 11 193 1 GGATTTCTCCTCCTTTTAGAACTTC 13 3 1 **** ***** * MAP Score: 9.94559 Motif 9 CGGAAAGGAGGGTGCAAAGGTCATTTTCGTAGAAAAG 1 9 1 AAAGGTAATTGTCGGGGATGCCCTTTCTTTTTTGAGAA 1 88 1 TCTCTTCGGGTGCGTTAAAGTTCTTTTTCTTGTCGTGC 1 244 0 TGAGAGTTCTGTTTCTAATGTACCGTGTGGAGTTAAAA 2 37 1 GTTGATTATTGTTTCTAATGTACCGTGTGGAGTTAAAA 2 104 1 GCTTGACGAAGTTTCTAATGTACCGTGTGGAGTTAAAA 2 169 1 GTTGCAGATGGTTTCTAATGTACCGTGTGGAGTTAAAA 2 234 1 TTACAAAACTGGAGACGGAGACCTTTTTGAGAAGAAGA 4 141 1 CTATTGCAAAGGTTACAAATTCCTTTATTTCTTTAATG 4 210 0 AGCCGGAATAGGGCGAAAAGCCTTTTTTTATAATTATA 5 245 1 GGGAGGTGGGGGGAGGGAGGGGCTTTCTCACCTCTCTA 11 172 0 TTGGCCTCCCGCCCGGGAGGCCCTTTCTAAAATAAATA 11 221 1 ** ** * **** * MAP Score: 7.48392 Motif 10 CGACAAGTACGACGAACTTATAAAACTTGCCCTA 1 175 1 TTGTGAAATGGAAGAAGTTTTAACTCCACACGGT 2 58 0 GGTAAAGCTTGACGAAGTTTCTAATGTACCGTGT 2 163 1 AGTTTGTTTTGACGATGTTGTGAAGGAAGAAGGC 4 51 1 ATCCGTACGTGAAGATCGTTTACAAAACTGGAGA 4 122 1 ACCTTTTTGAGAAGAAGATAGAAATACCACCCGA 4 161 1 GCGATGCTTTGATGATGTGATGAAATGATATCAT 5 176 0 ACTGAATAGGGATGATGGGTCTAATAAGCGATGC 5 203 0 TATTCATTTTGAAGAAGTGTGTCAAGTTAATTTA 6 60 0 TACGGAGAATGAAGAAGTTAGGAGAACTTGCAAA 11 111 1 TATTTTAAAATAAGAAGTTCTAAAAGGAGGAGAA 13 14 0 ** ****** ** MAP Score: 7.45815 Motif 11 TTTCCTTATTGAAAGGAGGAGGAG 0 32 1 CGGAAAGGAGGGTGCAAAGGTCAT 1 3 1 GTTTCTCAAAAAAGAAAGGGCATCCCCGACA 1 97 0 GTCGTAAATGTAAGGAGGGTCCGCAAATATC 1 148 0 TAAATAAGCTGGAAGAGGGTGGAGTGTTCAT 1 207 1 TAACGCACCCGAAGAGAGGAAATACGGTGAT 1 265 1 TACATTTTAAACAGGAGGGGCTAAA 3 51 1 ACGATGTTGTGAAGGAAGAAGGCTGTGAAGT 4 62 1 TAGACAGCGTGGAGTACGGAGGAGAATAAGT 4 266 1 TTCGTTTCGTGAAGGTAAGAAGTCTAATAAG 5 51 0 CCAAGGAGCCGGAATAGGGCGAAAAGCCTTT 5 239 1 TTCATTTTGAAGAAGTGTGTCAAGTTAATTT 6 61 0 CTCTCCTCCGAAAGTAGAGTGTAATTTTATT 6 90 0 CTCTACTTTCGGAGGAGAGCG 6 102 1 AAACTTTAAAGGAGGTAATATAG 9 7 1 AAAAGCGGGAAAAGAGGGGAGA 11 1 0 AAATTTAATAGTAGAGAGGTGAGAAAGCCCC 11 161 1 GGAGGTGGGGGGAGGGAGGGGCTTTCTCACC 11 178 0 AAAAATCGGTGGAGGGAGGTGGGGGGAGGGA 11 192 0 AAGAAGTTCTAAAAGGAGGAGAAATCC 13 6 0 ********* * MAP Score: 0.128553 Motif 12 TCCTCCTTTCAATAAGGAAAAAAATATAATCTGAGCGAAACT 0 10 0 CGGAAAGGAGGGTGCAAAGGTCATTTTCGTAGAAAA 1 4 1 GTGGAGTTAAAACAAGGTTTTGAAGCTGAACTTGAATATGTT 2 195 1 TGGAGTTAAAACGCAGATTGTAAAAAGAAATTAAAATAAAAA 2 261 1 GTCGGTGTAGATATTGACTTGGAAGTTTGTTTTGACGATGTT 4 28 1 GTTGTGAAGGAAGAAGGCTGTGAAGTTGACTTAACACCCGGT 4 67 1 GTATGCCTTTATAAAGTTTTCATACTTGATTTTCAGTCTCTT 5 119 1 AACAAAAATCAAAAAGTGTTTTAAATTAACTTGACACACTTC 6 39 1 AAGTTAGGAGAACTTGCAAAAAAATTTCAATTGCATAAATTT 11 125 1 * ** * ** * * ** MAP Score: 0.0135962