AlignACE 3.0 10/20/99 AlignACE2 -i AG/AG_operons016_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944242873 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 AF0071 156 ATP-dependent RNA helicase, putative #1 AF0072 300 conserved hypothetical protein #2 AF1149 105 large helicase-related protein (lhr-1) #3 AF1870 78 A. fulgidus predicted coding region AF1870 #4 AF2254 207 ATP-dependent RNA helicase, DEAD-family (deaD) #5 AF2338 300 A. fulgidus predicted coding region AF2338 #6 AF2344 110 A. fulgidus predicted coding region AF2344 #7 AF2345 47 A. fulgidus predicted coding region AF2345 #8 AF2346 106 A. fulgidus predicted coding region AF2346 #9 AF2350 300 ATP-dependent RNA helicase HepA, putative #10 AF2351 219 conserved hypothetical protein #11 AF2406 36 ATP-dependent RNA helicase, putative #12 AF2407 221 conserved hypothetical protein #13 AF2436 254 conserved hypothetical protein Motif 1 TTGACGATTTCATCGGAAAAGAAAATGAATGTG 0 22 1 GGCGGTGGTGTATCTGAAAAGAGGTCGCGACCC 1 209 0 GCTGAGCGCGAAACTGAAGGCAAAAGCTTTAAT 2 55 1 ACACGTTGTTAATTTGAAAGCAATATTTAGCCT 3 10 1 CTAATTGAGCAAGTTGAATCCAAAGATTGAATC 5 23 1 TCATCAAATTCAACTGAAATCAACGAGATTCAG 5 95 1 ACCCCAACATCAACTCAAATCAGCTTTGAATCA 5 148 1 TAAAATTGCTAAACTCAAATCAAATTCTTGATG 5 215 0 TTTGGCTTTAAATCTGAATCGAAGCAAATTATT 6 45 0 AGGTTTTCAACATCTGAAATGAGTGCAATCCT 7 9 0 AAATAATAACCAACTCAACCCAATCTCAAAAAC 13 57 1 TACCCAATTAAAACTCAAGATAAATTACTGTGA 13 112 1 ** ***** *** MAP Score: 9.50675 Motif 2 AACCAGTTACCGGTAAACCTAAGCTCATTAGA 0 75 0 TATAGGAGCTGGAAATACCTTAGTAGATAGGG 1 179 1 CTGACAGCAAGCAAAAACCTTATATTTGACAA 1 262 1 GCTTCAACCTGCAAAAACCTTAAAAATTCTTC 2 25 0 GGTTTTTGCAGGTTGAAGCTGAGCGCGAAACT 2 38 1 CGAAACTGAAGGCAAAAGCTTTAATCACCTCC 2 63 1 CGTAAAGGCTATGTTGGCGGGG 2 93 0 AATATACATCGGAAAAGGCTAAATATTGCTTT 3 26 0 TAAATCCGCAGGAAGTGGCTGAAAATTCATCA 5 69 1 TTTACAAACACGATAAACCTCATACTAAATGG 5 244 1 CATACTAAATGGAAAAACTTAATTCTGAATAG 5 264 1 TCAAAGTTCGGGGAGAAGTTAAAATTGGTTTT 11 12 0 TTATTTGAGTGGTAAAGCTTGAGGAAAAGATT 13 31 0 TGAATGTGTTGGAAAAAGCTATAAGGGGTTGT 13 144 0 ** ******* * MAP Score: 8.37407 Motif 3 CTGCGCAGTTTCAACCCAGACCGGGACTAGTT 1 56 0 TCGCCCGATTTGAGCCGAGACTCTAGCGTTCA 4 60 1 TATATACCCTTCAGCCAAGCGTTGGGAGATAG 4 158 1 TGGGGTTGAATCAACGTAGAATCATTCTGAAT 5 122 0 TCAACTCAAATCAGCTTTGAATCAGCAATGAA 5 157 1 CAATCAGCAATCAACGCTGCATCAAGAATTTG 5 196 1 TCTCTGAATATCTGCTCAGCATACTTCTTAAC 8 11 0 TTGGATAAAATCTGCCGAGCTCTTCTTTCAGC 8 43 0 GATAAGTAACTCTGCTATGACTGAATTCATTC 9 101 0 AGTGCATTTTTCAGCCATGATCTTCTCCAGAG 9 140 1 CTTTCCCTCTTCAGCCCTGAATTTTTCTCCAC 12 117 1 ****** *** * MAP Score: 7.34242 Motif 4 TTGATGCAGGGATTTTGGGGTTTGTTAATTTGA 0 109 1 TTGTTAATTTGATGGAGGGAATTTACAGGGGGA 0 130 1 TAAAGGCTATGTTGGCGGGGAGGTGATTAAAGC 2 80 0 GAGAGTCGAAGATTGAGGGATTCAAACAAAGAC 4 124 1 TTCAGCCAAGCGTTGGGAGATAGAGTGGAACGT 4 167 1 GATTTGAGTTGATGTTGGGGTTGAATCAACGTA 5 136 0 CCAAACTCCTGTTTGGGAGAATGAATTCAGTCA 9 83 1 AATTTGGTGAGATTTCGGTGAGGTGATAAC 9 280 1 CCCTCTTTACGATGTAGAGGTAGTATTTTTCCC 10 49 0 CGTAAAGAGGGTTTTTGAGGCTGGTTGCTCGGA 10 71 1 ATTTAATTTTGCTGGAGGTGTTGAG 10 204 1 CACTTGATAGCATGGAGAGGAGGCACCTGAAAT 12 161 0 ATATTTGGTTGTTTTTGAGATTGGGTTGAGTTG 13 67 0 * *** **** ** MAP Score: 7.25837 Motif 5 ACCGGTAACTGGTTTATTGATGCAGGGATTTTGGGGT 0 93 1 CCCGGTCTGGGTTGAAACTGCGCAGGATGAGCGTGAT 1 63 1 GACATGACGACGTGTATAGGAGCTGGAAATACCTTAG 1 165 1 GTTTTTGCAGGTTGAAGCTGAGCGCGAAACTGAAGGC 2 39 1 CGTAAAGGCTATGTTGGCGGGGAGGTGATTAA 2 83 0 TTAAAATTAAGGAGTGGATTCGCCCGATTTGAGCCGA 4 41 1 CATCGATTTAGTGGTAAATCCGCAGGAAGTGGCTGAA 5 55 1 AAAAGCCCATATTAAACAGGTGCTGGAT 6 92 1 ATCGTAAAGAGGGTTTTTGAGGCTGGTTGCTCGGAAA 10 69 1 ATTTCAAAGGGGAGTTTGTTTGCTGGATCTTGAATTA 10 112 0 AAAATATGAAGATTTAATTTTGCTGGAGGTGTTGAG 10 193 1 ACGTCATGATGTTCTACAAAGGCAGGACTATCTGGGA 12 16 0 TTCCAAATCCAGACTATTTCCGCAGGAATCGCAATTG 13 196 1 ** ** * ** *** MAP Score: 6.97001 Motif 6 TTACGCTTGACGATTTCATCGGAAAAGAAAATGAA 0 16 1 AAGGTGTTGTCCGGTCCTCCTCGAACAACTAGTCC 1 30 1 TCATCCTGCGCAGTTTCAACCCAGACCGGGACTAG 1 58 0 TGGATTCGCCCGATTTGAGCCGAGACTCTAGCGTT 4 55 1 CCTAATTGAGCAAGTTGAATCCAAAGATTGAATCA 5 22 1 CGATTTAGTGGTAAATCCGCAGGAAGTGGCTGAAA 5 58 1 GAAAATTCATCAAATTCAACTGAAATCAACGAGAT 5 89 1 GATTCAACCCCAACATCAACTCAAATCAGCTTTGA 5 142 1 GGCTTTAAATCTGAATCGAAGCAAATTATTTATCT 6 40 0 TTCTTAACTACTGGTTCTCTGGAGAAGATCATGGC 9 153 0 CATCATAGATGCATTTCGCCAGAAATTTGGTGAGA 9 257 1 ATCACCTCACCGAAATCTCACCAAATTTCTGGCGA 9 272 0 ACAAAGCTGCTAAATTCTACGGGGAAAAATACTAC 10 28 1 GTTTTTGAGGCTGGTTGCTCGGAAATAGAGATAAT 10 81 1 GGCCTCCACTCGATTTCAAAGGGGAGTTTGTTTGC 10 126 0 AAACCAATTTTAACTTCTCCCCGAACTTTGAAA 11 13 1 CAAATCCAGACTATTTCCGCAGGAATCGCAATTGT 13 199 1 * * *** * **** MAP Score: 5.90763 Motif 7 CCTGCGCAGTTTCAACCCAGACCGGGACTA 1 59 0 GACTCTAGCGTTCAGACATGTTTAGAAGTT 4 78 1 GATTGAGGGATTCAAACAAAGACTTATATA 4 134 1 TTATATACCCTTCAGCCAAGCGTTGGGAGA 4 157 1 TTGATGAATTTTCAGCCACTTCCTGCGGAT 5 72 0 TCTACGTTGATTCAACCCCAACATCAACTC 5 134 1 TTAGCAATTTTACAAACACGATAAACCTCA 5 236 1 GAGTGCATTTTTCAGCCATGATCTTCTCCA 9 139 1 GCTTTCCCTCTTCAGCCCTGAATTTTTCTC 12 116 1 TTCCAACACATTCAAACACTCAAAGAACCG 13 162 1 ********** MAP Score: 5.88487 Motif 8 AGTTACGCTTGACGATTTCATCGGAAAAGAA 0 14 1 TTAGTTGGTGCCGTATTTCCACAATCACGCT 1 92 0 GGGGTCGCGACCTCTTTTCAGATACACCACC 1 208 1 ACCACCGCCGGTGGTTTTCATTCACAACTCT 1 233 1 TGAACTCCATTATTTGAAGAATTTTTAA 2 7 1 AACTCTTTTTCATGGTGAAAGTT 4 2 1 AGTGGATTCGCCCGATTTGAGCCGAGACTCT 4 53 1 TCTGAATCTCGTTGATTTCAGTTGAATTTGA 5 98 0 CTGATTCAAAGCTGATTTGAGTTGATGTTGG 5 151 0 CCACCTATCTCAGGTTTTCAACATCTGAAAT 7 22 0 TCGCTGCATACATTTTTTCATGG 8 93 1 GTTGCAGTATTTCAAATTGCAAAAC 9 4 1 ACTCGAACCTCACGATTTCAACGTCATCATA 9 233 1 ATCGTAAAGAGGGTTTTTGAGGCTGGTTGCT 10 69 1 CTTGAATTATCTCTATTTCCGAGCAACCAGC 10 90 0 AAGGCCTCCACTCGATTTCAAAGGGGAGTTT 10 132 0 ACTGCAGAGCGGGCATTTCAGGTGCCTCCTC 12 147 1 TCCAAATCCAGACTATTTCCGCAGGAATCGC 13 197 1 * ********* MAP Score: 5.62413 Motif 9 GCTCATCCTGCGCAGTTTCAACCCAGACCGGG 1 63 0 CAGTTTCGCGCTCAGCTTCAACCTGCAAAAAC 2 39 0 CTCTCCGAGATGCAAATTAAACTTCTAAACAT 4 95 0 CTGAAAATTCATCAAATTCAACTGAAATCAAC 5 87 1 TTGATTCAACCCCAACATCAACTCAAATCAGC 5 140 1 AAGTTAAAAGCCCATATTAAACAGGTGCTGGA 6 87 1 ACTCGAACCTCACGATTTCAACGTCATCATAG 9 233 1 AAGGCCTCCACTCGATTTCAAAGGGGAGTTTG 10 131 0 TCAACCCAATCTCAAAAACAACCAAATATAAA 13 71 1 CATAATTCTACCCAATTAAAACTCAAGATAAA 13 104 1 * *** ****** MAP Score: 4.94175 Motif 10 TTTCGCGCTCAGCTTCAACCTGCAAAAACCTTAAA 2 33 0 AAAAGCTTTAATCACCTCCCCGCCAACATAGCCTT 2 76 1 GTAAATCCGCAGGAAGTGGCTGAAAATTCATCAAA 5 68 1 GCAATGAATCAACATCAATCAGCAATCAACGCTGC 5 181 1 CATGATGAAAAGGATGTCGCTGCATACATTTTTTC 8 77 1 GTTATCACCTCACCGAAATCTCACCAAA 9 282 0 TCTATTTCCGAGCAACCAGCCTCAAAAACCCTCTT 10 75 0 ATAGAGATAATTCAAGATCCAGCAAACAAACTCCC 10 105 1 CTTACTACGTATGGCGTTACGGAAACTATATTTAA 10 160 1 GTAGAACATCATGACGTAGCCGCAATTCTCGCAGA 12 36 1 TAGCATGGAGAGGAGGCACCTGAAATGCCCGCTCT 12 152 0 TCTCCATGCTATCAAGTGGCAGCAAGGCTTTTAAT 12 176 1 **** * * **** MAP Score: 4.86697 Motif 11 TTGACGATTTCATCGGAAAAGAAAATGAATG 0 22 1 GGCGGTGGTGTATCTGAAAAGAGGTCGCGAC 1 211 0 TACCAATATACATCGGAAAAGGCTAAATATT 3 31 0 AGGTTTTCAACATCTGAAATGAGTGCAATCC 7 11 0 GGAGAGGAGGCACCTGAAATGCCCGCTCTGC 12 150 0 ********* * MAP Score: 4.46601 Motif 12 GGAAATACCTTAGTAGATAGGGGTCGCGAC 1 189 1 TGTATATTGGTAGCAGAAAGATTTATATTA 3 50 1 AATTTGCATCTCGGAGAGAGTCGAAGATTG 4 109 1 AGCCAAGCGTTGGGAGATAGAGTGGAACGT 4 170 1 TACCTCTACATCGTAAAGAGGGTTTTTGAG 10 60 1 GGCTGGTTGCTCGGAAATAGAGATAATTCA 10 89 1 TCGAAGTCCCAGATAGTCCTGCCTTT 12 6 1 GCCGCAATTCTCGCAGATAGCTATGCGGAC 12 54 1 TGCGATTCCTGCGGAAATAGTCTGGATTTG 13 199 0 ********** MAP Score: 4.41939 Motif 13 TGATTGTGGAAATACGGCACCAACTAAGGAAATTAAGG 1 96 1 AGCTTTAATCACCTCCCCGCCAACATAGCCTTTACG 2 79 1 ACAAAGACTTATATACCCTTCAGCCAAGCGTTGGGAGA 4 149 1 GGCTGAAAATTCATCAAATTCAACTGAAATCAACGAGA 5 85 1 CGTTGATTCAACCCCAACATCAACTCAAATCAGCTTTG 5 138 1 AAAACTGGAGAGATAAACGCCATCGGAGTTATTAAAGA 9 30 1 GTGAGGTTCGAGTTCACCAATACCGTAACCGTCCAGAT 9 208 0 GAACCTCACGATTTCAACGTCATCATAGATGCATTTCG 9 237 1 GGGGAAAAATACTACCTCTACATCGTAAAGAGGGTTTT 10 48 1 CTCAACACCTCCAGCAAAATTAAATCTTC 10 200 0 TTTACCACTCAAATAATAACCAACTCAACCCAATCTCA 13 47 1 ACTCAACCCAATCTCAAAAACAACCAAATATAAAACAT 13 69 1 * *** * ** * ** MAP Score: 4.30919 Motif 14 CACGCTCATCCTGCGCAGTTTCAACCCAGACCGGGAC 1 61 0 TAAGGAGGTTTGACACAGGTTTGACAATCCGCATAAG 1 129 1 GTCGCGACCTCTTTTCAGATACACCACCGCCGGTGGT 1 211 1 TTCAGCCACTTCCTGCGGATTTACCACTAAATCGATG 5 55 0 AACATCAACTCAAATCAGCTTTGAATCAGCAATGAAT 5 153 1 TAATTTGCTTCGATTCAGATTTAAAGCCAAATAATTT 6 47 1 TGCACCACCTATCTCAGGTTTTCAACATCTGAAATG 7 21 0 AAGAAGTATGCTGAGCAGATATTCAGAGAGCTGAAAG 8 14 1 GAAAGAAGAGCTCGGCAGATTTTATCCAAAACATGAT 8 46 1 TGGCGTTTATCTCTCCAGTTTTGCAATTTGAAATACT 9 15 0 TCCCCACTTGCTGTCCAGCTTTCCCTCTTCAGCCCTG 12 99 1 TAAAATCTTTTCCTCAAGCTTTACCACTCAAATAATA 13 28 1 * *** *** ** * MAP Score: 4.14523 Motif 15 CATCAACTCAAATCAGCTTTGAATCAGCAATG 5 155 1 ACCAGTCTTTATTTGGCTTTGAGAAGATAAAT 6 16 1 CAAATTCTTGATGCAGCGTTGATTGCTGATTG 5 196 0 TGGATAAGTAACTCTGCTATGACTGAATTCAT 9 103 0 CAGCAAACAAACTCCCCTTTGAAATCGAGTGG 10 124 1 ATTCAGAATGATTCTACGTTGATTCAACCCCA 5 122 1 GTGGAGAAAAATTCAGGGCTGAAGAGGGAAAG 12 117 0 GAAGATAAATAATTTGCTTCGATTCAGATTTA 6 38 1 AACTAGTCCCGGTCTGGGTTGAAACTGCGCAG 1 56 1 AGGAGGTTTGACACAGGTTTGACAATCCGCAT 1 131 1 CTGCATCAAGAATTTGATTTGAGTTTAGCAAT 5 212 1 TTAAAAAATTATTTGGCTTTAAATCTGAATCG 6 57 0 GTTGTTTTTGAGATTGGGTTGAGTTGGTTATT 13 61 0 TTTGAGTTGATGTTGGGGTTGAATCAACGTAG 5 135 0 * ** ******* MAP Score: 2.96257 Motif 16 ACAACTCTGACAGCAAGCAAAAACCTTATA 1 256 1 AGCTTTGAATCAGCAATGAATCAACATCAA 5 169 1 CAACATCAATCAGCAATCAACGCTGCATCA 5 190 1 GTGCATTTTTCAGCCATGATCTTCTCCAGA 9 141 1 ATTCAAGATCCAGCAAACAAACTCCCCTTT 10 114 1 TTTCCCTCTTCAGCCCTGAATTTTTCTCCA 12 118 1 TATCAAGTGGCAGCAAGGCTTTTAATATTT 12 185 1 ********** MAP Score: 2.65246 Motif 17 AACTGGTTTATTGATGCAGGGATTTTGGGG 0 99 1 GTTTGTTAATTTGATGGAGGGAATTTACAG 0 128 1 TTAAGGAGGTTTGACACAGGTTTGACAATC 1 128 1 ATTTTTAAGGTTTTTGCAGGTTGAAGCTGA 2 30 1 AAGAGGGTTTTTGAGGCTGGTTGCTCGGAA 10 75 1 AGATTTAATTTTGCTGGAGGTGTTGAG 10 202 1 ATCCAGACTATTTCCGCAGGAATCGCAATT 13 202 1 ********** MAP Score: 1.9424 Motif 18 CATTAGATTCGCCATATCCTGAATTGTCACAT 0 50 0 GATTGAGGGATTCAAACAAAGACTTATATACC 4 134 1 GCAAGTTGAATCCAAAGATTGAATCATCGATT 5 31 1 TCTTCTCAAAGCCAAATAAAGACTGGTGAAAC 6 11 0 ATTTCAGATGTTGAAAACCTGAGATAGGTGGT 7 22 1 GCAGATTTTATCCAAAACATGATGAAAAGGAT 8 60 1 TATTTCAAATTGCAAAACTGGAGAGATAAACG 9 17 1 GAATTCATTCTCCCAAACAGGAGTTTGGTCGT 9 79 0 TATGATGACGTTGAAATCGTGAGGTTCGAGTT 9 232 0 GGGCTGAAGAGGGAAAGCTGGACAGCAAGTGG 12 102 0 AACCGAATTTTCCAAATCCAGACTATTTCCGC 13 187 1 ****** * *** MAP Score: 1.82702 Motif 19 AGGTAGTTACGCTTGACGATTTCATCGGA 0 1 1 TCCCGGTCTGGGTTGAAACTGCGCAGGATGAGCGTGAT 1 62 1 AGACATGACGACGTGTATAGGAGCTGGAAATACCTTAG 1 164 1 GAAATACCTTAGTAGATAGGGGTCGCGACCTCTTTTCA 1 190 1 GGTTTTTGCAGGTTGAAGCTGAGCGCGAAACTGAAGGC 2 38 1 GTTAAAATTAAGGAGTGGATTCGCCCGATTTGAGCCGA 4 40 1 TCATCGATTTAGTGGTAAATCCGCAGGAAGTGGCTGAA 5 54 1 AGCTGATTTGAGTTGATGTTGGGGTTGAATCAACGTAG 5 135 0 GATTTCAAAGGGGAGTTTGTTTGCTGGATCTTGAATTA 10 112 0 CGCCATACGTAGTAAGGCCTCCACTCGATTTCAAAGGG 10 138 0 TTATTATTTGAGTGGTAAAGCTTGAGGAAAAGATTTTA 13 28 0 *** * * ** *** MAP Score: 1.73309 Motif 20 ATCAAATTAACAAACCCCAAAATCCCTGCATC 0 111 0 ACAGGTTTGACAATCCGCATAAGACATGACGA 1 143 1 ACAACTCTGACAGCAAGCAAAAACCTTATATT 1 256 1 CGCTCAGCTTCAACCTGCAAAAACCTTAAAAA 2 31 0 GAGCGCGAAACTGAAGGCAAAAGCTTTAATCA 2 58 1 CTTTAATCACCTCCCCGCCAACATAGCCTTTA 2 81 1 ACAAAACTTTCACCATGAAAAAGAGTT 4 5 0 ACGTTCCACTCTATCTCCCAACGCTTGGCTGA 4 168 0 GAATCAACATCAATCAGCAATCAACGCTGCAT 5 186 1 TGACTGAATTCATTCTCCCAAACAGGAGTTTG 9 84 0 TCCGAGCAACCAGCCTCAAAAACCCTCTTTAC 10 72 0 GATAATTCAAGATCCAGCAAACAAACTCCCCT 10 110 1 CTCAACACCTCCAGCAAAATTAAATCTTC 10 200 0 CAACTCAACCCAATCTCAAAAACAACCAAATA 13 67 1 ** ** ****** MAP Score: 1.21985 Motif 21 AGTCCCGGTCTGGGTTGAAACTGCGCAGGATGAG 1 60 1 TGAGCGTGATTGTGGAAATACGGCACCAACTAAG 1 90 1 ATATTTGACAAGGTGTAACTTTGCTCA 1 283 1 ACATCGGAAAAGGCTAAATATTGCTTTCAAATTA 3 19 0 TCATCGATTTAGTGGTAAATCCGCAGGAAGTGGC 5 54 1 AACTCAAATCAGCTTTGAATCAGCAATGAATCAA 5 159 1 GGTTTCACCAGTCTTTATTTGGCTTTGAGAAGA 6 9 1 CATCATGTTTTGGATAAAATCTGCCGAGCTCTTC 8 50 0 CAGTTTTGCAATTTGAAATACTGCAAC 9 3 0 CTCTCCATGGATAAGTAACTCTGCTATGACTGAA 9 108 0 TAAAATATGAAGATTTAATTTTGCTGGAGGTGTT 10 192 1 ** **** ** ** MAP Score: 0.730918 Motif 22 GACGTGTATAGGAGCTGGAAATACCTTAGTAGATAGGG 1 173 1 ATGTATATTGGTAGCAGAAAGATTTATATTAAATGAAG 3 49 1 TCCGCAGGAAGTGGCTGAAAATTCATCAAATTCAACTG 5 73 1 TGAAAAGGATGTCGCTGCATACATTTTTTCATGG 8 82 1 GTTGCAGTATTTCAAATTGCAAAACTGG 9 0 1 GGGGAGTTTGTTTGCTGGATCTTGAATTATCTCTATTT 10 103 0 TACGTATGGCGTTACGGAAACTATATTTAAAATATGAA 10 165 1 ACATCATGACGTAGCCGCAATTCTCGCAGATAGCTATG 12 41 1 ATGCTATCAAGTGGCAGCAAGGCTTTTAATATTTACCG 12 181 1 ATAAGGGGTTGTCACAGTAATTTATCTTGAGTTTTAAT 13 118 0 ** ** * ** * ** MAP Score: 0.534521