AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_fusions032_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944241757 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 yclJ 212 similar to two-component response regulator [YclK] #1 ydbF 69 similar to two-component sensor histidine kinase [YdbG] #2 yfmA 40 yfmA #3 yflT 35 yflT #4 pel 190 pectate lyase #5 yflS 126 similar to 2-oxoglutarate/malate translocator #6 citS 126 two-component sensor histidine kinase #7 ykuA 300 similar to penicillin-binding protein #8 kinA 163 two-component sensor histidine kinase #9 flgB 300 flagellar basal-body rod protein #10 fliF 45 flagellar basal-body M-ring protein #11 fliH 117 flagellar assembly protein #12 fliK 160 fliK #13 flgE 21 flagellar hook protein #14 fliL 251 flagellar protein #15 fliM 33 flagellar motor switch protein #16 cheY 25 two-component response regulator #17 flhA 32 flagella-associated protein Motif 1 GTTAGCACCCTTTGTGTTTTTCACTTTC 5 6 0 ATTGCAAATATTTGTATTTTTCGGTAGAAAGC 14 205 0 TCTGTTTCCTTTGCTCTTTTTCTTTGGTTCAC 7 269 0 TTTAATAAATTTTGCATTTTTCTTCAAAAAGT 9 29 1 TACCTCCATTTCAGTTTTTTTCACCCTCAATA 9 271 0 GCAGACCGCGTCTGCCTTTTTCTTT 6 3 0 CATTGGCCTTTTGGTTTTTTCCTTGCT 4 5 0 TATAGAAAGTTTTCTTTTTTCCTTTTGTGGAG 11 36 0 TACCTAGATCATACCATTTTTCACAGGGAATT 6 86 0 GGTGCTAACCTTTGTGTTTTTTAATTAATTAA 5 29 1 GTTACATAGCTTCCTTTTTTTTGAACCGTTAG 7 91 1 AATAGCAGAATTTCTGTTTTTTCTCCTTTCTT 9 76 0 AAACAGAAATTCTGCTATTTTCAGGCTTATAT 9 89 1 GCAGACGCGGTCTGCCTTTTTTTATTTTCACT 6 20 1 TGTCGGCCTTTTGGTTTTTTTGCGGTCTTTGC 4 35 1 TCCTTCATGTTTTCTATATTTCTT 3 2 0 TTGTTTTCCGATCCCCTTTTCCATTCTACTCC 5 82 0 AGAGATTGTCATTTTCGTAAAGTAAA 7 4 1 TAGAAGGAGAATACTCATTTTCTAGCGAATCA 8 80 1 TCCTTTCTTTTCGGCATTTTTGAAACTTTTTG 9 53 0 CACAGGGAATTTTCTCATTTTTCAAAATCCAT 6 65 0 TTGTGTGCCCTTTCTTTTATTCAAAAATTGAC 8 34 1 CCACTATGTACCCCCATTTTCTATTTTGTGA 4 169 0 TTTTATATTGACAGCTTTTTTTACTCCTTTTC 7 139 1 TCCGGTTCCTCTATTCCTTGATCCATT 14 234 0 TATACCGCTGATTCCCTTATTCTTAGTGATTC 7 42 0 TCTGATTGCTCTGTTTCCTTTGCTCTT 7 283 0 ** ** ****** MAP Score: 30.0549 Motif 2 TTCGATTTAAAAGGAGAGAAAAAACAGC 17 14 1 GCCGAAAAGAAAGGAGAAAAAACAGAAATT 9 70 1 CGAAACACAAGGAGAGAGATAGATT 16 8 1 TTTTCTTACGAAGGAGTGAAAATAAAAAAA 6 36 0 TTCTCCACAAAAGGAAAAAAGAAAACTTTC 11 34 1 AGCAAGGAAAAAACCAAAAGGCC 4 3 1 TTACAGCGAAAAGGAGTAAAAAAAGCTGTC 7 148 0 CTTTCAGAACAAGGAAAGGGAACTCCTAAT 12 118 1 TAACTTAGTTAAGGAGTAGAATGGAAAAGG 5 70 1 CAGCCTGCAAAAGGTGAGAATGATCAATAC 11 78 0 GCAATGGATCAAGGAATAGAGGAACCGGA 14 232 1 AAAGACCTGAAAGGAGAAGCTG 1 57 1 ATAAGAATAGAAGGAGAATACTCATTTTCT 8 73 1 CGATTTAGAGAAAGAGTGGAATGACCGGGG 10 19 1 AAAGAAAAAGGCAGACGCGG 6 0 1 GACGTGAACCAAAGAAAAAGAGCAAAGGAA 7 266 1 TTTTTGAATAAAAGAAAGGGCACACAATCT 8 31 0 AAAAAGAGCAAAGGAAACAGAGCAATCAGA 7 280 1 TAGTAGTCCAAAGGTATGAAAAAAATATGA 0 82 1 GAAAGTGAAAAACACAAAGGG 5 1 1 GATTTTGAAAAATGAGAAAATTCCCTGTGA 6 68 1 ********** MAP Score: 26.362 Motif 3 TAACATAGGGGAGGGCTTTTC 1 0 0 TACGGATAAAGGCAGCGTTTC 2 29 1 AAAGGCCAATGTCGGCCTTTTGGTTTTTTTG 4 26 1 GGCAGACCGCGTCTGCCTTTTTCTTT 6 5 0 GGCAGACGCGGTCTGCCTTTTTTTATTTTCA 6 19 1 AGCACCAGCCGTCCTTTCTACCTAGATC 6 108 0 TTTTTATATTGACAGCTTTTTTTACTCCTTT 7 138 1 CTAAAAGATTGTGTGCCCTTTCTTTTATTCA 8 26 1 AAGCGCTCCGGGTTCTCTTCAGCCTGCAAA 11 97 0 ATTAGCCGGACCTTTCGTCGAGACC 12 4 1 GAAAACTCCTGGCTACTTTTCATGTTTTTAG 12 52 0 TCAGAATTAGGAGTTCCCTTTCCTTGTTCTG 12 122 0 CGTTTGAACGGGCAGCCCTTTACACTGAATG 14 64 1 GTAGAAAGCTGCGATCTTTTCCAGAACAGCT 14 183 0 * ********* MAP Score: 12.8204 Motif 4 AAAGGTATGAAAAAAATATGAACAATCTATTTC 0 91 1 ATTATATAAAAAAGCATCAAAACAACCGGAGGA 0 185 1 AGCAAGGAAAAAACCAAAAGGCCAATGTC 4 6 1 AAAGACCGCAAAAAAACCAAAAGGCCGACATTG 4 32 0 ATAAAATCTCACAAAATAGAAAATGGGGGTACA 4 161 1 GAAAGTGAAAAACACAAAGGGTGCTAACC 5 6 1 AAAGAAAAAGGCAGACGCGGTCTGCC 6 3 1 CGAAGGAGTGAAAATAAAAAAAGGCAGACCGCG 6 25 0 AATGGATTTTGAAAAATGAGAAAATTCCCTGTG 6 64 1 TGAATCACTAAGAATAAGGGAATCAGCGGTATA 7 41 1 CTAACGGTTCAAAAAAAAGGAAGCTATGTAACG 7 90 0 TGTTACAGCGAAAAGGAGTAAAAAAAGCTGTCA 7 147 0 GGGGTAACCAGAAGTGACTGAAATAGGACGTGA 7 240 1 TGAACCAAAGAAAAAGAGCAAAGGAAACAGAGC 7 270 1 GTTCACCATAAGAATAGAAGGAGAATACTCATT 8 66 1 AAAAGTTTCAAAAATGCCGAAAAGAAAGGAGAA 9 55 1 ATGCCGAAAAGAAAGGAGAAAAAACAGAAATTC 9 68 1 TATAAGCCTGAAAATAGCAGAATTTCTGTTTTT 9 87 0 ATTGAGGGTGAAAAAAACTGAAATGGAGGTAAG 9 272 1 ATTTCTCCACAAAAGGAAAAAAGAAAACTTTCT 11 32 1 TTCAGCCTGCAAAAGGTGAGAATGATCAATACG 11 77 0 TCTGCCGCTAAAAACATGAAAAGTAGCCAGGAG 12 45 1 AGGAACTTTCAGAACAAGGAAAGGGAACTCCTA 12 113 1 GTTTGTAGTAAAAGAAGATGAAGAAGCTGTTCT 14 159 1 GCTTTCTACCGAAAAATACAAATATTTGCAATG 14 205 1 GCATAATTTGACAGAATACGGAGGTGAGGAAA 15 11 1 CGAAACACAAGGAGAGAGATAGAT 16 1 1 TTTTCGATTTAAAAGGAGAGAAAAAACAGC 17 12 1 **** * * **** MAP Score: 8.06443 Motif 5 TTTTGATGCTTTTTTATATAATAGCACCATTTTAAA 0 171 0 CAAAATCCATTTTCTTACGAAGGAGTGAAAATAAAA 6 39 0 AGAAAATGGATTTTGAAAAATGAGAAAATTCCCTGT 6 60 1 CATAGCTTCCTTTTTTTTGAACCGTTAGTTATATTT 7 95 1 TTTTACTCCTTTTCGCTGTAACAACTATTACAAAGG 7 157 1 TGAACGTCAATTTTTGAATAAAAGAAAGGGCACACA 8 35 0 GAATACTCATTTTCTAGCGAATCATACTAGGTAAAA 8 88 1 GATCATCGTGTTTCGACATATACAGATTGACTTTTA 8 119 0 AGTCTTTCTATGTAATAATTTTAATAAATT 9 4 1 AAATTTTGCATTTTTCTTCAAAAAGTTTCAAAAATG 9 35 1 ATGCCTGTTATTTCTTACAATAAGCATATAGTTTTA 9 219 1 GAATCATCTATTTCTCCACAAAAGGAAAAAAGAAAA 11 23 1 AAAAGAAAACTTTCTATACAAGAGGTGCGTATTGAT 11 50 1 AGATCGCAGCTTTCTACCGAAAAATACAAATATTTG 14 197 1 ATTTTTCGATTTAAAAGGAGAGAAAAAAC 17 3 1 ***** ** ** * MAP Score: 7.99563 Motif 6 AATAAAAATACCTATACGGAGGAACATAA 0 2 0 CTTTATCCGTACGAGCAGGAGGTATGTCTA 2 3 0 AATATAGAAAACATGAAGGAGGAATATCGAC 3 14 1 AAAATATAATAGCAAATTGAGGGACATTCAGAACCGA 4 110 0 CTCACAAAATAGAAAATGGGGGTACATAGTGG 4 168 1 AACGGTTCAAAAAAAAGGAAGCTATGTAACGGTACGA 7 84 0 ACGTGAACCAAAGAAAAAGAGCAAAGGAAACAGAGCA 7 267 1 CGTTCACCATAAGAATAGAAGGAGAATACTCATTTTC 8 65 1 CATTTTTGAAACTTTTTGAAGAAAAATGCAAAATTTA 9 34 0 TCAGGCTTATATCAGGGCGAGAAATGTAGTTCTAACA 9 109 1 GTGAAAAAAACTGAAATGGAGGTAAGTGGAT 9 279 1 GGGGTCTGACGATTTAGAGAAAGAGTGGAATGACC 10 8 1 AGAAAACTTTCTATACAAGAGGTGCGTATTGATCATT 11 53 1 AAACATCTGGGGGAATATATT 13 1 1 GGAGGGAGGGGAGGCGAGTAATCGCTTCT 14 2 1 ATAATTTGACAGAATACGGAGGTGAGGAAA 15 13 1 CGAAACACAAGGAGAGAGATAGATT 16 3 1 * * ***** * ** MAP Score: 3.58824 Motif 7 ATGTCATAGCCCCCATTATCCTTAACATAGG 1 22 0 GATATTCCTCCTTCATGTTTTCTATATTTCT 3 11 0 AGGCCAATGTCGGCCTTTTGGTTTTTTTGCG 4 28 1 TCTGAATGTCCCTCAATTTGCTATTATATTT 4 115 1 CACTATGTACCCCCATTTTCTATTTTGTGAG 4 168 0 TGTTTTCCGATCCCCTTTTCCATTCTACTCC 5 82 0 CAGACCGCGTCTGCCTTTTTCTTT 6 3 0 CAGACGCGGTCTGCCTTTTTTTATTTTCACT 6 21 1 ATTTTTCAAAATCCATTTTCTTACGAAGGAG 6 50 0 CAGGGAATTTTCTCATTTTTCAAAATCCATT 6 64 0 AGAGATTGTCATTTTCGTAAAGTAAAT 7 6 1 CGTTACATAGCTTCCTTTTTTTTGAACCGTT 7 90 1 AGCTTTTTTTACTCCTTTTCGCTGTAACAAC 7 151 1 CTTTGGTTCACGTCCTATTTCAGTCACTTCT 7 249 0 TTATGGTGAACGTCAATTTTTGAATAAAAGA 8 46 0 GAAGGAGAATACTCATTTTCTAGCGAATCAT 8 82 1 TTAATAAATTTTGCATTTTTCTTCAAAAAGT 9 30 1 CCTTTCTTTTCGGCATTTTTGAAACTTTTTG 9 53 0 TTCTGTTTTTTCTCCTTTCTTTTCGGCATTT 9 66 0 ATTGTTAGAACTACATTTCTCGCCCTGATAT 9 117 0 ATAATTGTGAGGACATTTTTTTACACGAACT 9 177 1 TTTTTTTCACCCTCAATATCCTTGTCGAGAA 9 258 0 AGTTTTCTTTTTTCCTTTTGTGGAGAAATAG 11 30 0 TTGATCATTCTCACCTTTTGCAGGCTGAAGA 11 81 1 GAATTAGGAGTTCCCTTTCCTTGTTCTGAAA 12 119 0 TAGAAAGCTGCGATCTTTTCCAGAACAGCTT 14 182 0 ** ******** MAP Score: 2.40016 Motif 8 TAGTTGATGAAATAAAAACTAACAATTGTGAAACG 0 124 1 TGCTATTATATAAAAAAGCATCAAAACAACCGGAG 0 181 1 AGCAAGGAAAAAACCAAAAGGCCAATGT 4 3 1 TTTATCACAAAAATATAATAGCAAATTGAGGGACA 4 121 0 GAAAGTGAAAAACACAAAGGGTGCTAA 5 2 1 CATTTTAATTAATTAAAAAACACAAAGGTTAGCAC 5 30 0 AAGGAGTGAAAATAAAAAAAGGCAGACCGCGTCTG 6 21 0 ACGTGAACCAAAGAAAAAGAGCAAAGGAAACAGAG 7 267 1 AAAATGCCGAAAAGAAAGGAGAAAAAACAGAAATT 9 65 1 TTCTCCACAAAAGGAAAAAAGAAAACTTTCTATAC 11 34 1 ** **** * *** MAP Score: 1.6283 Motif 9 TATATCCTCCGGTTGTTTTGATGCTTTTT 0 193 0 GATATTCCTCCTTCATGTTTTCTATATTTCTT 3 9 0 CGACATTGGCCTTTTGGTTTTTTCCTTGCT 4 7 0 CAATGTCGGCCTTTTGGTTTTTTTGCGGTCTTT 4 32 1 GGTTAGCACCCTTTGTGTTTTTCACTTTC 5 6 0 GTGCTAACCTTTGTGTTTTTTAATTAATTAAAA 5 30 1 CTCCTCCTATATACTTGTTTTCCGATCCCCTTT 5 95 0 CAGACGCGGTCTGCCTTTTTTTATTTTCACTCC 6 21 1 CGTTACATAGCTTCCTTTTTTTTGAACCGTTAG 7 90 1 TTTATATTGACAGCTTTTTTTACTCCTTTTCGC 7 140 1 TTGTGTGCCCTTTCTTTTATTCAAAAATTGACG 8 34 1 TCTGTTTTTTCTCCTTTCTTTTCGGCATTTTTG 9 63 0 ATAGCAGAATTTCTGTTTTTTCTCCTTTCTTTT 9 74 0 GTATAGAAAGTTTTCTTTTTTCCTTTTGTGGAG 11 36 0 AAGCGCTCCGGGTTCTCTTCAGCCTGCA 11 99 0 TCGAGACCGACGACGGGTTCTGCCGCTAAAAAC 12 27 1 CCTGGCTACTTTTCATGTTTTTAGCGGCAGAAC 12 43 0 GGAGTTCCCTTTCCTTGTTCTGAAAGTTCCTTC 12 111 0 GCTTCTTCATCTTCTTTTACTACAAACTTCTTA 14 153 0 TTTCCTCACCTCCGTATTCTGTCAAATTATGC 15 11 0 ATCTATCTCTCTCCTTGTGTTTCG 16 1 0 GCTGTTTTTTCTCTCCTTTTAAAT 17 18 0 ** * ****** * MAP Score: 1.53863