AlignACE 3.0 10/20/99 AlignACE2 -i HI/HI_operons024_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944238211 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 HI0036 205 ABC transporter, ATP-binding protein #1 HI0058 70 3-deoxy-D-manno-octulosonate cytidylyltransferase (kdsB) #2 HI0059 72 conserved hypothetical protein #3 HI0060 40 ABC transporter, ATP-binding protein (msbA) #4 HI0061 258 recombination protein (rec2) #5 HI0663 300 ATP-binding transport protein (cydD) #6 HI1051 77 ABC transporter, ATP-binding protein #7 HI1052 111 transcriptional regulator, araC family, putative #8 HI1077 300 CTP synthetase (pyrG) #9 HI1157 71 ATP-binding protein protein (cydD) #10 HI1158 73 thioredoxin reductase (trxB) #11 HI1159 284 conserved hypothetical protein #12 HI1252 162 ABC transporter, ATP-binding protein #13 HI1466.1 300 H. influenzae predicted coding region HI1466.1 #14 HI1467 58 ABC transporter, ATP-binding protein Motif 1 ATATCCAAGTTGTTTTTTGAAAACCTTAACCAA 0 48 1 TTGTTTTGATTGCTTGCCGATAAAGCTGAAATA 1 26 1 TTTATTGATTATCGAAAACGCGAGTTGA 2 5 1 ATCATCATAATGATTACTCCTAAAATAAAAAG 5 9 0 GTAATCATTATGATGATAGATAAACGCCTAATT 5 25 1 TTAACACGGTGGCTGACAGCAAAAAATGGATTG 5 56 1 ATCATCATAATGATTACTCCTAAAATAAAAAGA 5 222 0 GTAATCATTATGATGATAGATAAACGCCTAATT 5 238 1 TTAACACGGTGGCTGACAGCAAAAAATGGATTG 5 269 1 GTTGCCTTTCTTTTTAAGGAAAAGAT 6 61 1 TTTATCTCAATTTTTATCGCTAACATCTCATT 7 89 1 ACATTACAAATGTTGAATGATAAATTAAGTATT 8 85 0 AGGATAAAAAGGATTAAGCCAAAACTAGCATTG 8 136 1 GTAGTTTACCTGATTTGCGCAATGAACTCAATG 8 164 0 GGAATATAAATGATTATAGCTAATCATCCTACA 8 258 0 GTTTTGGTCGTGATTATAGAAAAAGTTCCCCTC 9 47 0 AAATAATGGCTGATTTTAGCAAAGTGCGGAAGA 11 38 0 TGATGACAAGTGGTTTTTCCTAAGGATTGTTGC 11 145 0 AATTCGGGCTTGATTATAGAAATGTTTATAACG 13 74 0 TCCCCGACTGTGTTTAAAGAAACACTATGGATA 13 216 0 GCTCTTTTTCTATTTATGGAAAACTA 14 42 1 ** *** ***** MAP Score: 21.4906 Motif 2 TGAAAAATAACCGCACTTTTTGTAAAAGGG 0 157 0 TTATTTTTCACCGCACTTTTATCTCGGATG 0 177 1 GTTATTTTATCCGCACTTATTAGAAAGGAT 2 47 1 CGATTTTTGACCGCACTTTTGGTTGATTTT 8 225 1 CTAACCAATTCCCCTCTTTTAACTCTTTTA 9 15 1 AGAAAAAGTTCCCCTCTTTAAAAGAGTTAA 9 33 0 CTAAAATCTTCCGCACTTTGCTAAAATCAG 11 32 1 TCGCTCTTTTTCACAATTTA 11 274 0 TCCTATATTTTCGCCCTATTTTCCAGTAGA 12 111 1 ACAAAAAAATTCGCCCTATTCTACTGGAAA 12 130 0 CAAACTGGCTTCGCTCTTTTTCTATTTATG 14 30 1 ********** MAP Score: 20.8898 Motif 3 TCAAAAAATGATACGTTCGTCACATTTTTTCTTGCG 0 83 1 AGTGCGGTGAAAAATAACCGCACTTTTTGTAAAAGG 0 158 0 ACGCGAGTTGAAAAACTCGCGTTATTTTATCCGCAC 2 27 1 GGAAGTCGTGAAATCCACGCTTAATTCTGTATGTAT 4 22 0 TTATGATGATAGATAAACGCCTAATTAACACGGTGG 5 32 1 TTATGATGATAGATAAACGCCTAATTAACACGGTGG 5 245 1 CTGGTGTGGCAAATTATAGGCGGATTAGATTATGAT 7 44 1 TGATTATAGAAAAAGTTCCCCTCTTTAAAAGAGTTA 9 34 0 AACGTTTCTAAAATCTTCCGCACTTTGCTAAAATCA 11 25 1 CCTTGTGAAAAAAATAATGGCTGATTTTAGCAAAGT 11 46 0 GCCAACGCATAAAGAATCGGCGGATTTTTTGGCACT 11 188 1 CTTGTTTCCTATATTTTCGCCCTATTTTCCAGTAGA 12 105 1 TTCCTCACAAAAAAATTCGCCCTATTCTACTGGAAA 12 130 0 GTTTCTTTAAACACAGTCGGGGAATTTGCTATTGGA 13 226 1 AAATAGAAAAAGAGCGAAGCCAGTTTGCCCTAGGTT 14 21 0 * * ***** *** MAP Score: 17.7439 Motif 4 ATATTTCAGCTTTATCGGCAAGCAATCAAAACAA 1 26 0 CGCTTAATTCTGTATGTATTAGGAGTGAGAG 4 7 0 TATCAGAAGTTGTTTGTTTTAGCAAGTAAATTTT 4 124 1 CTTTTTATTTTAGGAGTAATCATTA 5 1 1 TAATTAGGCGTTTATCTATCATCATAATGATTAC 5 25 0 TGCATACTTCTTTTTATTTTAGGAGTAATCATTA 5 214 1 TAATTAGGCGTTTATCTATCATCATAATGATTAC 5 238 0 ATTGATTTGTTTTTGTGCTATAATAATATGCAC 6 9 1 CTGCGTTGCCTTTCTTTTTAAGGAAAAGAT 6 57 1 GGCTTAATCCTTTTTATCCTTGGAAAGGATCCAC 8 122 0 AGAGGGGAACTTTTTCTATAATCACGACCAAAAC 9 46 1 CAGCCATTATTTTTTTCACAAGGATAAAACATGG 11 59 1 ATAGGGCGAATTTTTTTGTGAGGAATTATTA 12 141 1 TTTATTTCTCATAAGATCTGTGCC 13 286 0 CTTCGCTCTTTTTCTATTTATGGAAAACTA 14 38 1 *** * * * **** MAP Score: 15.0009 Motif 5 TTAACCAAACTCAAAAAATGATACGTTCGT 0 73 1 TGTAAAAGGGTCAAAAATTTTCGGTATTGT 0 137 0 TGACCCTTTTACAAAAAGTGCGGTTATTTT 0 154 1 CTATCTAATAGTAAAAATTGCACGCATTGT 3 15 0 TATACCGCCCGCAAAAATTGGGTTCCTAAA 4 92 0 GATATGGATCGCAAAATTTGAAGCAACCGT 4 178 1 GTGGCTGACAGCAAAAAATGGATTGGTATC 5 64 1 GTGGCTGACAGCAAAAAATGGATTGGTGTC 5 277 1 GATGTTAGCGATAAAAATTGAGATAAATAA 7 86 0 GACAAAATCAACCAAAAGTGCGGTCAAAAA 8 228 0 GCAAAAAGTTTATAATCAGT 10 0 1 GCGTTGGCGCGTAAAAATTGATGACAAGTG 11 166 0 GACAGATTTTGCAAAAGTTTGGCGAAACCT 12 73 0 CGTAGCTATAGCCAAAATTTAATTTCCAAC 13 42 0 ********** MAP Score: 14.6531 Motif 6 CCGAAAATTTTTGACCCTTTTACAAAAAGTGCGGTTATT 0 143 1 AAATATTCCATCCGAGATAAAAGTGCGGTGAAAAA 0 180 0 CTCTCACTCCTAATACATACAGAATTAAGCGT 4 3 1 CAGGAAAATTTACTTGCTAAAACAAACAACTTCTGATAT 4 123 0 ATCATAATGATTACTCCTAAAATAAAAAG 5 0 0 ATTAACACGGTGGCTGACAGCAAAAAATGGATTGGTATC 5 55 1 AGGGTGGGCTTCAGCCCACCNACAAACAGTCGTGAGATA 5 129 1 ATCATAATGATTACTCCTAAAATAAAAAGAAGTATGCAT 5 213 0 ATTAACACGGTGGCTGACAGCAAAAAATGGATTGGTGTC 5 268 1 TTGATTTGTTTTTGTGCTATAATAATATGCACTTCTAAA 6 11 1 GTATCATAATCTAATCCGCCTATAATTTGCCACACCAGT 7 43 0 GATTGTGGATCCTTTCCAAGGATAAAAAGGATTAAGCCA 8 118 1 TTTTGTTCGTTGATCTCAACGATAAAAGGAAAATCAGCC 11 91 0 ATTCTTTATGCGTTGGCGCGTAAAAATTGATGACAAGTG 11 166 0 TCACAATTTACTTTTCCAAGAATAAATTGTCCTTGATAT 11 245 0 TAGAGTGAAGTATTCCCTAAATTAAATAGACACTTTAGG 12 17 0 ATTTTCGCCCTATTTTCCAGTAGAATAGGGCGAATTTTT 12 117 1 TAATAATTCCTCACAAAAAAATTCGCCCTATTCTA 12 137 0 CTCATAAGATCTGTGCCCACAACAAAGCGATTCGCAATA 13 264 0 * *** * * *** * MAP Score: 14.2403 Motif 7 GTCAGGAACAAACTAAAATAACAAGACAGGA 4 55 0 AAAATTGGGTTCCTAAAATAGCAGTCAGGAA 4 78 0 AAAATTTACTTGCTAAAACAAACAACTTCTG 4 127 0 TAATGATTACTCCTAAAATAAAAAG 5 4 0 TTAGGCGTTTATCTATCATCATAATGATTAC 5 25 0 TAATGATTACTCCTAAAATAAAAAGAAGTAT 5 217 0 TTAGGCGTTTATCTATCATCATAATGATTAC 5 238 0 TTTGTTTTTGTGCTATAATAATATGCACTTC 6 15 1 ATAAATAAGCAAGTATCATAATCTAATCCGC 7 63 0 TAGGATGATTAGCTATAATCATTTATATTCC 8 260 1 GGGGAACTTTTTCTATAATCACGACCAAAAC 9 49 1 GGTAAAACGTTTCTAAAATCTTCCGCACTTT 11 20 1 TTCCGCACTTTGCTAAAATCAGCCATTATTT 11 40 1 TTATAAACATTTCTATAATCAAGCCCGAATT 13 76 1 * ********* MAP Score: 12.9809 Motif 8 GGATTATATCCAAGTTGTTTTTTGAAAACCTTAACCAA 0 43 1 ATGTGACGAACGTATCATTTTTTGAGTTTGGTTAAGGT 0 70 0 ATACGTTCGTCACATTTTTTCTTGCGAAATTGAGCATA 0 93 1 ACAAAAAGTGCGGTTATTTTTCACCGCACTTTTATCTC 0 164 1 TTGAAAAACTCGCGTTATTTTATCCGCACTTATTAGAA 2 34 1 TTTTAGGAACCCAATTTTTGCGGGCGGTATAAATATCA 4 91 1 CTTTTTATTTTAGGAGTAATCATTATGA 5 0 1 ACGTTAAGTACGCATAATTCTATGCATACTTCTTTTTA 5 192 1 ATGCATACTTCTTTTTATTTTAGGAGTAATCATTATGA 5 213 1 TTTAGAAGTGCATATTATTATAGCACAAAAACAAATCA 6 12 0 AGCTAATTATCTTCGATTTTTGACCGCACTTTTGGTTG 8 212 1 CTAAAATCAGCCATTATTTTTTTCACAAGGATAAAACA 11 52 1 GTGGTTTTTCCTAAGGATTGTTGCAGTATTTCAGTAAG 11 131 0 ATATCAAGGACAATTTATTCTTGGAAAAGTAAATTGTG 11 245 1 TAGAATAGGGCGAATTTTTTTGTGAGGAATTATTA 12 137 1 TATTGCGAATCGCTTTGTTGTGGGCACAGATCTTATGA 13 264 1 * * ** * **** * MAP Score: 12.8645 Motif 9 TTTTTTGCTGTCAGCCACCGTGTTAATTAG 5 52 0 AGGGTGGGCTTCAGCCCACCNACAAACAGT 5 129 1 AGAGTGGGCTTCAGCCCACCAAAATATCTC 5 162 0 TTTTTTGCTGTCAGCCACCGTGTTAATTAG 5 265 0 AATATTTGTCTCAACCAACACATCTCTTGA 8 18 1 TAAAAAGGATTAAGCCAAAACTAGCATTGA 8 140 1 ACAGACAAAATCAACCAAAAGTGCGGTCAA 8 231 0 ATCGTTGAGATCAACGAACAAAATCTTACT 11 107 1 CAAACATTAATCAACCAAAAAAACCAATAA 13 123 1 ********** MAP Score: 6.60533 Motif 10 TTTGAAAACCTTAACCAAACTCAAAAAATGATACGTT 0 63 1 TCAACTCGCGTTTTCGATAATCAATAAA 2 1 0 GGAAAATTTACTTGCTAAAACAAACAACTTCTGATAT 4 123 0 ATCTCAATTTTTATCGCTAACATCTCATT 7 92 1 ATTTTAATATTTGTCTCAACCAACACATCTCTTGATG 8 13 1 GTTTACCTGATTTGCGCAATGAACTCAATGCTAGTTT 8 157 0 TGTAGGATGATTAGCTATAATCATTTATATTCCAATA 8 258 1 TCTTCCGCACTTTGCTAAAATCAGCCATTATTTTTTT 11 38 1 GCCATTATTTTTTTCACAAGGATAAAACATGGCTGAT 11 61 1 GGCGGATTTTTTGGCACTACTTGAGCAAGTTGCAGAA 11 206 1 TTGCAAAAGTTTGGCGAAACCTAACCACTTGTAAATA 12 58 0 TCGCCAAACTTTTGCAAAATCTGTCCACTTGTTTCCT 12 78 1 TCACTTAATTTGTGCTCAACTTTAAAATCA 13 3 0 AAATTAAATTTTGGCTATAGCTACGCACGTTATAAAC 13 47 1 GCGAAGCCAGTTTGCCCTAGGTTTTAATGACTAA 14 7 0 TAGTTTTCCATAAATAGAAAAAGAGCGAAG 14 38 0 ** ** *** * ** MAP Score: 5.39348 Motif 11 AATACCGAAAATTTTTGACCCTTTTACAAAAAGTGCGGTTATT 0 139 1 TTTTCACCGCACTTTTATCTCGGATGGAATATTT 0 181 1 CTCGCGTTATTTTATCCGCACTTATTAGAAAGGATTTTCT 2 42 1 TATCATCATAATGATTACTCCTAAAATAAAAAG 5 0 0 ATTATGATGATAGATAAACGCCTAATTAACACGGTGGCTGACA 5 31 1 TATCATCATAATGATTACTCCTAAAATAAAAAGAAGTATGCAT 5 213 0 ATTATGATGATAGATAAACGCCTAATTAACACGGTGGCTGACA 5 244 1 ATTGATTTGTTTTTGTGCTATAATAATATGCACTTCTAAA 6 7 1 ACATCTCTTGATGTTTTTAACTGCTTGAATAAGTATGTAGTGG 8 37 1 ATCAGCCATTATTTTTTTCACAAGGATAAAACATGGCTGATTT 11 57 1 AAGATTTTGTTCGTTGATCTCAACGATAAAAGGAAAATCAGCC 11 91 0 TTGTCATCAATTTTTACGCGCCAACGCATAAAGAATCGGCGGA 11 169 1 AATCGGCGGATTTTTTGGCACTACTTGAGCAAGTTGCAGAACA 11 202 1 ACAGTCACTTAATTTGTGCTCAACTTTAAAATCA 13 1 0 TAGTTTTCCATAAATAGAAAAAGAGCGAAGCCA 14 35 0 * *** * * ** * * MAP Score: 2.25897 Motif 12 TCGTCACATTTTTTCTTGCGAAATTGAGCATAGCC 0 99 1 TGCGTGCAATTTTTACTATTAGATAGCGATT 3 19 1 AGCAAGTAAATTTTCCTGAAAAATTTATTTTTACG 4 144 1 GGAGTAATCATTATGATGATAGATAAACGCCTAAT 5 22 1 GGAGTAATCATTATGATGATAGATAAACGCCTAAT 5 235 1 ATTCGCCCTATTCTACTGGAAAATAGGGCGAAAAT 12 117 0 AGGGCGAATTTTTTTGTGAGGAATTATTA 12 143 1 GTGGGCACAGATCTTATGAGAAATAAA 13 283 1 ** * ** ***** MAP Score: 0.202089 Motif 13 ATATCCAAGTTGTTTTTTGAAAACCTTAACCAA 0 48 1 AAATAACCGCACTTTTTGTAAAAGGGTCAAAAA 0 150 0 TTTATTGATTATCGAAAACGCGAGTTGA 2 5 1 TAAAAATAAATTTTTCAGGAAAATTTACTTGCT 4 144 0 GCTGGAATTAATCTTTTATAAAA 4 245 1 GTTGCCTTTCTTTTTAAGGAAAAGAT 6 61 1 CCATGTTTTATCCTTGTGAAAAAAATAATGGCT 11 60 0 ATTGTTGCAGTATTTCAGTAAGATTTTGTTCGT 11 120 0 AAGGACAATTTATTCTTGGAAAAGTAAATTGTG 11 250 1 GGTTTCGCCAAACTTTTGCAAAATCTGTCCACT 12 74 1 ATTCGCCCTATTCTACTGGAAAATAGGGCGAAA 12 119 0 GTGGGCACAGATCTTATGAGAAATAAA 13 283 1 GCTCTTTTTCTATTTATGGAAAACTA 14 42 1 * *** ** **** MAP Score: 0.0984784