AlignACE 3.0 10/20/99 AlignACE2 -i AA/AA_operons015_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944235495 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 serS 29 seryl-tRNA synthetase #1 aq_585 300 hypothetical protein #2 pilT 35 twitching motility protein PilT #3 gspD 300 general secretion pathway protein D #4 aq_1345 300 putative protein #5 phoH 25 phosphate starvation-inducible protein #6 aq_1473 129 putative protein #7 aq_1974 37 putative protein #8 hemN 300 oxygen-independent coproporphyrinogen II #9 gatC 297 glutamyl-tRNA (Gln) amidotransferase subunit C Motif 1 TTCCTTTTAACGACTCCCTACTTCATAGGTT 3 176 1 TCATAGGTTACGCCTTCTTCGTGTTTGCAGG 3 198 1 AGAAAGAGGAGCACTCCTAAGGTGCTGATGG 3 258 0 ACCACGTCTCCTTCCCGTGGGAGAA 3 285 0 CCCCTCTCCTCGTCTTCCACGA 4 1 0 TCTATTATGAGGACTTCCTCCTCGCAGTCAA 4 49 0 AGGAACAGGACCTGCCCTTCGGAGCTTTCGC 4 129 1 AGAATTATCCCGTCTTCTGAGTCCAAAGCGA 4 156 0 ATACTCGCTTCGAGTTCCTCGTAATCGAAGG 4 213 0 TTTAAAAGCTCGTCTCCCCACTCTGCGAAAA 4 261 0 TTAACAGCCACCCGCTCTGCCGATTGAGCTA 6 48 0 GTTGGGGGTTCGAGTCCCTCCCCCGGAGCCA 6 86 1 AAGAAATAAGGCAGCCCCACCTAATACTACA 8 186 0 GTCGCGGGTTCGAGTCCCGCCCGGCTCACCA 9 79 0 GACTCGAACCCGCGACCCACGGCTTAAAAGG 9 94 1 GTCGGGGGTTCGAGTCCCCTCCGCTCCACCA 9 168 0 CTCGAACCCCCGACCTCCGACATGCCATATC 9 185 1 ATGCCATATCGGCGCTCTCCCAGCTGAGCTA 9 206 1 ******** ** MAP Score: 20.1639 Motif 2 AAGGCCGTTGCTCTACCAACTGAGCTACCGGCTCT 9 121 1 CATATCGGCGCTCTCCCAGCTGAGCTACCGCCCCT 9 210 1 CAGCCACCCGCTCTGCCGATTGAGCTACCCCGGAT 6 40 0 GTCCCCTCCGCTCCACCAGTTGAGCTGCTAAGAGC 9 151 0 GCGGAGGGGACTCGAACCCCCGACCTCCGACATGC 9 175 1 GGGGTTCGAGTCCCTCCCCCGGAGCCATTTCCACA 6 90 1 AGGAACAGGACCTGCCCTTCGGAGCTTTCGCTTTG 4 129 1 GGGTTCGAGTCCCGCCCGGCTCACCATATAACTAT 9 70 0 CCGGGCGGGACTCGAACCCGCGACCCACGGCTTAA 9 86 1 GGGGGAGGGACTCGAACCCCCAACCAGGTGGTTAA 6 75 0 ACCACGTCTCCTTCCCGTGGGAGAAAGAGGAGCA 3 276 0 AGCTGAGCTACCGCCCCTACTGACAGAATAGAAAT 9 227 1 *** ** * **** MAP Score: 17.8828 Motif 3 GAATATATTAGCCCCAGAGGAAAAAGTAAAGTC 1 67 1 AGGATGTTTAGGAGAAAAGGAAGCTTTGAGAAG 1 154 1 TTATCAAAAAGGCGATAAGGTAGGAAATAGCTC 3 66 0 TCCCGTAAAAGCCCAAGGGGAGTACTGGGGCTA 3 112 1 TGATGGCGTATCCGAGAAGGACACTCTGTATAT 3 231 0 GGTAATTGACTGCGAGGAGGAAGTCCTCATAAT 4 44 1 CAAAGCGAAAGCTCCGAAGGGCAGGTCCTGTTC 4 131 0 GATATTTTTCGCAGAGTGGGGAGACGAGCTTTT 4 256 1 ATCCGGGGTAGCTCAATCGGCAGAGCGGGTGGC 6 40 1 TGTGGAAATGGCTCCGGGGGAGGGACTCGAACC 6 92 0 GATCTTTGAGGGTGAAAAGGCATTACTAATTGT 8 129 1 ATAGTTATATGGTGAGCCGGGCGGGACTCGAAC 9 70 1 GCGACCCACGGCTTAAAAGGCCGTTGCTCTACC 9 105 1 AGAGCCGGTAGCTCAGTTGGTAGAGCAACGGCC 9 123 0 GCTCTTAGCAGCTCAACTGGTGGAGCGGAGGGG 9 151 1 CTGGGAGAGCGCCGATATGGCATGTCGGAGGTC 9 196 0 AGGGGCGGTAGCTCAGCTGGGAGAGCGCCGATA 9 212 0 ****** ** ** MAP Score: 16.202 Motif 4 ACTGAACCTTGTAACTATAAATGTGGAGGGGAAGAA 1 274 1 GCTATCCGGGGTAGCTCAATCGGCAGAGCGGGTGGCTGTTAACC 6 37 1 AGGATAAATTGGATCTCTCTATACTGGGGATAGGATTTATTATT 8 21 1 TGAGCCGGGCGGGACTCGAACCCGCGACCCACGGCTTAAAAGGC 9 82 1 TTAAAAGGCCGTTGCTCTACCAACTGAGCTACCGGCTCTTAGCA 9 117 1 CCGGCTCTTAGCAGCTCAACTGGTGGAGCGGAGGGGACTCGAAC 9 148 1 TGGAGCGGAGGGGACTCGAACCCCCGACCTCCGACATGCCATAT 9 171 1 ATGCCATATCGGCGCTCTCCCAGCTGAGCTACCGCCCCTACTGA 9 206 1 * *** * **** * MAP Score: 11.3872 Motif 5 AGATAATTAGCGGAGCTATTTCCTACCTTATCG 3 54 1 AATGTTTTTCCGAAACCTTTCCTATCGGTTGTT 4 79 0 ACCTGCCCTTCGGAGCTTTCGCTTTGGACTCAG 4 138 1 GGGAGGGACTCGAACCCCCAACCAGGTGGTTAA 6 75 0 GTCCCTCCCCCGGAGCCATTTCCACAATACAAT 6 99 1 GGGCGGGACTCGAACCCGCGACCCACGGCTTAA 9 88 1 GCTCTACCAACTGAGCTACCGGCTCTTAGCAGC 9 130 1 GGAGGGGACTCGAACCCCCGACCTCCGACATGC 9 177 1 GCTCTCCCAGCTGAGCTACCGCCCCTACTGACA 9 219 1 ******* * ** MAP Score: 9.39755 Motif 6 GATAATTAGCGGAGCTATTTCCTACCTTATCG 3 55 1 CGGTACTTCTGGAGTTATTTCCTTTTAACGAC 3 158 1 TTCCTTTTAACGACTCCCTACTTCATAGGTTA 3 176 1 TCTATTATGAGGACTTCCTCCTCGCAGTCAAT 4 48 0 GAGAGGAACAGGACCTGCCCTTCGGAGCTTTC 4 126 1 ATACTCGCTTCGAGTTCCTCGTAATCGAAGGT 4 212 0 GTTGGGGGTTCGAGTCCCTCCCCCGGAGCCAT 6 86 1 TCCCTCCCCCGGAGCCATTTCCACAATACAAT 6 100 1 AAGAAATAAGGCAGCCCCACCTAATACTACAA 8 185 0 GTCGCGGGTTCGAGTCCCGCCCGGCTCACCAT 9 78 0 CTCGAACCCGCGACCCACGGCTTAAAAGGCCG 9 96 1 GTCGGGGGTTCGAGTCCCCTCCGCTCCACCAG 9 167 0 CTCGAACCCCCGACCTCCGACATGCCATATCG 9 185 1 CTCTCCCAGCTGAGCTACCGCCCCTACTGACA 9 220 1 ******** ** MAP Score: 8.04783 Motif 7 GACATATACAGAGTGTCCTTCTCGGATACGCCATCAGCACCTT 3 228 1 CACCTTAGGAGTGCTCCTCTTTCTCCCACGGGAAGGAGACGTG 3 265 1 AATTGACTGCGAGGAGGAAGTCCTCATAATAGAACAACCGATA 4 47 1 GGTTTTTGGAGAGGAACAGGACCTGCCCTTCGGAGCTTTCGCT 4 118 1 GACAGACTTTGAGGCTCGATACCTTCGATTACGAGGAACTCGA 4 192 1 GAGGAACTCGAAGCGAGTATATCCTCACTTGAGATATTTTTCG 4 224 1 GGATATTTAAAAGCTCGTCTCCCCACTCTGCGAAAAATATCTC 4 254 0 TGGCTATCCGGGGTAGCTCAATCGGCAGAGCGGGTGGCTGTTA 6 35 1 GGCAGAGCGGGTGGCTGTTAACCACCTGGTTGGGGGTTCGAGT 6 58 1 ACCTGGTTGGGGGTTCGAGTCCCTCCCCCGGAGCCATTTCCAC 6 81 1 GCAAGAAATAAGGCAGCCCCACCTAATACTACAATAAATATGA 8 176 0 CGTGGGTCGCGGGTTCGAGTCCCGCCCGGCTCACCATATAACT 9 72 0 CACGGCTTAAAAGGCCGTTGCTCTACCAACTGAGCTACCGGCT 9 111 1 CGGAGGTCGGGGGTTCGAGTCCCCTCCGCTCCACCAGTTGAGC 9 161 0 TCTGTCAGTAGGGGCGGTAGCTCAGCTGGGAGAGCGCCGATAT 9 211 0 * * * *** * * ** MAP Score: 7.72304 Motif 8 AACGACTTTACTTTTTCCTCTGGGGCTAAT 1 73 0 CTTCTCAAAGCTTCCTTTTCTCCTAAACAT 1 157 0 TTCTTCCCCTCCACATTTATAG 1 288 0 ACGTAGTAAACGAGCTTCTCTACAACGGGC 3 13 0 AACTCCAGAAGTACCGCCTCATGGCTATGT 3 144 0 TTCCTTTTAACGACTCCCTACTTCATAGGT 3 176 1 TCATAGGTTACGCCTTCTTCGTGTTTGCAG 3 198 1 ATATACAGAGTGTCCTTCTCGGATACGCCA 3 231 1 TAGGAGTGCTCCTCTTTCTCCCACGGGAAG 3 270 1 ACCACGTCTCCTTCCCGTGGGAGA 3 286 0 CCCCTCTCCTCGTCTTCCACGA 4 2 0 ATTATGAGGACTTCCTCCTCGCAGTCAATT 4 47 0 AAGGGCAGGTCCTGTTCCTCTCCAAAAACC 4 118 0 AGGAACAGGACCTGCCCTTCGGAGCTTTCG 4 129 1 ATACTCGCTTCGAGTTCCTCGTAATCGAAG 4 214 0 TTTAAAAGCTCGTCTCCCCACTCTGCGAAA 4 262 0 TGGTTAACAGCCACCCGCTCTGCCGATTGA 6 52 0 GTTGGGGGTTCGAGTCCCTCCCCCGGAGCC 6 86 1 GTTCGAGTCCCGCCCGGCTCACCATATAAC 9 73 0 ACCAACTGAGCTACCGGCTCTTAGCAGCTC 9 135 1 GTTCGAGTCCCCTCCGCTCCACCAGTTGAG 9 162 0 CCCAGCTGAGCTACCGCCCCTACTGACAGA 9 224 1 ********** MAP Score: 7.55899 Motif 9 AATTTACAATATATAACTTGAATATATTAGCCCC 1 48 1 AAGGGAACAGATATTCTTCTCAAAGCTTCCTTTT 1 168 0 GATTACGAAAATATAATCTGTAAAGATGCTGATT 1 221 1 GTTAAACTTATTATATAAGTGGTAA 2 1 1 CTCACTTGAGATATTTTTCGCAGAGTGGGGAGAC 4 247 1 GATAGCCAAGATAAAATTATAAAACCTTAATTT 6 9 0 ATAGGATTTATTATTGCTTTAATAAGTATCTTTT 8 50 1 TGGGGCTGCCTTATTTCTTGCAAATAAACAATTA 8 198 1 TTTTTCACCTATATTATTCTCATA 8 286 1 TACTATTAGTATATAGCTTTTAAATCTTGCTGTC 9 26 1 TAGCTTTTAAATCTTGCTGTCAAATTATTTGATA 9 39 1 CCGGCTCACCATATAACTATCAAATAATTTGACA 9 56 0 AATAGAAATTATAATCCTTTTAAATGAAGGTTTC 9 253 1 ***** ** * * * MAP Score: 5.32762 Motif 10 CTTCTCAAAGCTTCCTTTTCTCCTAAACAT 1 157 0 TTCTTCCCCTCCACATTTATAG 1 288 0 AACTCCAGAAGTACCGCCTCATGGCTATGT 3 144 0 TATACAGAGTGTCCTTCTCGGATACGCCAT 3 232 1 AGGAGTGCTCCTCTTTCTCCCACGGGAAGG 3 271 1 ACCACGTCTCCTTCCCGTGGGAGAAAG 3 283 0 ATTATGAGGACTTCCTCCTCGCAGTCAATT 4 47 0 GGCAGGTCCTGTTCCTCTCCAAAAACCATC 4 115 0 GAGAGGAACAGGACCTGCCCTTCGGAGCTT 4 126 1 TATTTAAAAGCTCGTCTCCCCACTCTGCGA 4 264 0 GGGGGTTCGAGTCCCTCCCCCGGAGCCATT 6 89 1 GCGGGTTCGAGTCCCGCCCGGCTCACCATA 9 77 0 GGGGGTTCGAGTCCCCTCCGCTCCACCAGT 9 166 0 ATGCCATATCGGCGCTCTCCCAGCTGAGCT 9 206 1 CCCAGCTGAGCTACCGCCCCTACTGACAGA 9 224 1 ********** MAP Score: 3.66603 Motif 11 CCTTTTATTTTTCTTTTTTCTGCCT 1 5 0 TATATTCAAGTTATATATTGTAAATTCCAC 1 44 0 TCTTTACAGATTATATTTTCGTAATCTCTT 1 217 0 GTGGCTACGTTTATTTACTGAACCTTGTAA 1 258 1 GATAAGAAAGTTCTTTCTTCCCGTAAAAGC 3 94 1 AATTACCATGTTTTTTATTCCCCTCTCCTC 4 21 0 GGTTTTATAATTTTATCTTGGCTATCCGGG 6 17 1 TTTAATAAGTATCTTTTTTGGTGTTGCACT 8 67 1 TGCTCTTTTCATATTTATTGTAGTATTAGG 8 168 1 TGGGGCTGCCTTATTTCTTGCAAATAAACA 8 198 1 CTATTTTTACTTCTTTCCTGAGGCTTTTAA 8 229 0 GGATTATAATTTCTATTCTGTCAGTAGGGG 9 240 0 ********** MAP Score: 3.14586 Motif 12 TGAATATATTAGCCCCAGAGGAAAAAGTAAA 1 66 1 TTCCCGTAAAAGCCCAAGGGGAGTACTGGGG 3 111 1 TATCCGGGGTAGCTCAATCGGCAGAGCGGGT 6 39 1 TTTTAAGTAAAACTCAGGAGGTTAAAA 7 20 1 GGCTCTTAGCAGCTCAACTGGTGGAGCGGAG 9 150 1 ******** ** MAP Score: 1.06672 Motif 13 TAAAGGATGTTTAGGAGAAAAGGAAGCTTTGAGA 1 151 1 GAAAATATAATCTGTAAAGATGCTGATTTAAGTG 1 227 1 TAACTATAAATGTGGAGGGGAAGAA 1 285 1 GATGCCCGTTGTAGAGAAGCTCGTTTACTAC 3 7 1 GTCCTGCAAACACGAAGAAGGCGTAACCTATGAA 3 197 0 CTTCCCGTGGGAGAAAGAGGAGCACTCCTAAGGT 3 266 0 TCTCCCACGGGAAGGAGACGTGGT 3 286 1 TCGTGGAAGACGAGGAGAGGGGAATA 4 2 1 GGTAATTGACTGCGAGGAGGAAGTCCTCATAATA 4 44 1 ACGGATGGTTTTTGGAGAGGAACAGGACCTGCCC 4 112 1 AAGCGAAAGCTCCGAAGGGCAGGTCCTGTTCCTC 4 128 0 CGCTTTGGACTCAGAAGACGGGATAATTCTCTTT 4 157 1 TTTCGCAGAGTGGGGAGACGAGCTTTTAAATATC 4 262 1 GGTAGCTCAATCGGCAGAGCGGGTGGCTGTTAAC 6 46 1 GGTAGCTCAGTTGGTAGAGCAACGGCCTTTTAAG 9 116 0 CAGCTCAACTGGTGGAGCGGAGGGGACTCGAACC 9 159 1 TTCTATTCTGTCAGTAGGGGCGGTAGCTCAGCTG 9 226 0 * * ***** *** MAP Score: 0.976877 Motif 14 ACGCTAAGGGAACAGATATTCTTCTCAAAGCTTCCTTTTCT 1 166 0 AAGCTCGTTTACTACGTTTACACGGCGGAGATAATTAGCGG 3 26 1 TGATAAGAAAGTTCTTTCTTCCCGTAAAAGCCCAAGGGGAG 3 93 1 ACCACGTCTCCTTCCCGTGGGAGAAAGAGGAGCA 3 276 0 TTGACTGCGAGGAGGAAGTCCTCATAATAGAACAACCGATA 4 49 1 TTGGAGAGGAACAGGACCTGCCCTTCGGAGCTTTCGCTTTG 4 123 1 TTATAATTTTATCTTGGCTATCCGGGGTAGCTCAATCGGCA 6 21 1 AAGCAATAATAAATCCTATCCCCAGTATAGAGAGATCCAAT 8 28 0 GTGCAACACCAAAAAAGATACTTATTAAAGCAATAATAAAT 8 55 0 ACAATTAGTAATGCCTTTTCACCCTCAAAGATCATACGGTT 8 121 0 GCAAATAAACAATTAAAAGCCTCAGGAAAGAAGTAAAAATA 8 217 1 CAAGATTTAAAAGCTATATACTAATAGTAGATCTTTTTCTC 9 14 0 TCTACCAACTGAGCTACCGGCTCTTAGCAGCTCAACTGGTG 9 132 1 * * *** * * *** MAP Score: 0.161785