AlignACE 3.0 10/20/99 AlignACE2 -i AP/AP_fusions004_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944248573 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 APE0301 116 282aa long hypothetical oligopeptide transport ATP-binding protein oppD #1 APE0944 145 325aa long hypothetical spermidine/putrescine transport ATP-binding protein #2 APE1399 293 333aa long hypothetical dipeptide transport system ATP-binding protein #3 APE2260 300 280aa long hypothetical peptide transport system permease protein Motif 1 CAAGGGGTAGTTAATGCACTAGACGGAGTAGAGCTTGATGT 0 60 1 GCGGCGTCCGCCGTGGAGATGCTGAAACGCG 1 0 1 ACCGCCCCCGGCCCTAAAGTCTAGGGTGTTGGTTAGAGGGT 1 54 0 GCCGGGGGCGGTGGCTGTCTGTTGGGGGGCGTCGAGGTCAG 1 83 1 GAGTATGACAGCGCCGAAGTCGAGCGTGAGGTAGACTAGAA 2 21 0 GCAGGCCTCAGCTTCCTAGGCCTTGGCGCCGTCCCGCCCAT 2 68 1 ACCGTACTTGGCTTCAACCTGCTGGGAGACGCTCTCAGAGA 2 200 1 GAGATATAATGGATCCGAGGACTAGGAGGAGGATAGAGTTC 2 237 1 GAGGAGGATAGAGTTCAAGGTTAAGGGGAGGTGAGTGGGGA 2 262 1 GGCCTCCAATTCGCTATACTCCTGGGAGGGGCGGTTCTAAC 3 77 1 GAAGAATACTGTAACCCCCTGTATGGTGCTGTAGTCCCTAT 3 174 0 CCAGGGTTAGGTACTAAAGGTCAGGGGGTGGTTGCCA 3 273 1 * * *** * ** * * MAP Score: 26.4165 Motif 2 CCCCCGGCCCTAAAGTCTAGGGTGTTGGTTAG 1 59 0 TTGGGGGGCGTCGAGGTCAGGCTTGATAACGT 1 104 1 CGGGACGGCGCCAAGGCCTAGGAAGCTGAGGC 2 72 0 GTCCCGCCCATAGCGGACTGGGGTAGGATAAT 2 98 1 ACACTAGCCACCACGCGTTGGGATAGTACTGT 2 142 0 GAATAGTATGGCTAGGCCTGGGAAGAACACTA 2 168 0 CCATACTATTCACCGTACTTGGCTTCAACCTG 2 189 1 TACTTGGCTTCAACCTGCTGGGAGACGCTCTC 2 204 1 TATAATGGATCCGAGGACTAGGAGGAGGATAG 2 241 1 AGGATAGAGTTCAAGGTTAAGGGGAGGTGAGT 2 266 1 TCCAATTCGCTATACTCCTGGGAGGGGCGGTT 3 81 1 CCTTCAGCTGGCCAGGCCTGGGGAGCCTTCTG 3 126 1 GTGGAGAGGATATCCTATAGGGACTACAGCAC 3 158 1 AATACTGTAACCCCCTGTATGGTGCTGTAGTC 3 179 0 ACAGTATTCTTCGCGTTCATGGTAGGCCTGGT 3 203 1 GTAGATGATGTCGACGATAAGGCTCACCAGGC 3 228 0 TACGCTATAGTCAACCCCAGGGTTAGGTACTA 3 257 1 GGTTAGGTACTAAAGGTCAGGGGGTGGTTGCC 3 277 1 ** *** ***** MAP Score: 24.5794 Motif 3 GCGGCGTCCGCCGTGGAGATGCTGAAACGCGG 1 4 1 TACTTGGCTTCAACCTGCTGGGAGACGCTCTCAGAGAT 2 204 1 AGGCTACCTTCAGCTGGCCAGGCCTGGGGAGCCTTCTG 3 120 1 TTAACTATTACACTAGGCAAGGGGTAGTTAATGCACTA 0 43 1 GGGTTAGGTACTAAAGGTCAGGGGGTGGTTGCCA 3 276 1 GCCTCAGCTTCCTAGGCCTTGGCGCCGTCCCGCCCATA 2 72 1 ACACCCTAGACTTTAGGGCCGGGGGCGGTGGCTGTCTG 1 66 1 AATACTGTAACCCCCTGTATGGTGCTGTAGTCCCTATA 3 173 0 TATAATGGATCCGAGGACTAGGAGGAGGATAGAGTTCA 2 241 1 GGGGCGGTGGCTGTCTGTTGGGGGGCGTCGAGGTCAGG 1 87 1 GGTGGCTAGTGTTCTTCCCAGGCCTAGCCATACTATTC 2 162 1 TCCAATTCGCTATACTCCTGGGAGGGGCGGTTCTAACT 3 81 1 GATAGCTGTGCACATGCTCAGGATAAGCCTCATACCAA 3 25 1 TCGGCGCTGTCATACTCGTTGAAGCAGGCCTCAGCTTC 2 45 1 CTGGGGTTGACTATAGCGTAGATGATGTCGACGATAAG 3 239 0 TATTCTTCGCGTTCATGGTAGGCCTGGTGAGCCTTATC 3 207 1 CCTAGGCCCTGTTCTAGTCTACCTCACG 2 0 1 ACTGGGGTAGGATAATCTATGACGGTGCACAGTACTAT 2 114 1 * * *** ** * ** MAP Score: 22.5164 Motif 4 ATTATCCTACCCCAGTCCGCTATGGGCGGGACGGCGCCAAGGC 2 87 0 TATTCACCGTACTTGGCTTCAACCTGCTGGGAGACGCTCTCAG 2 195 1 TAACCAACACCCTAGACTTTAGGGCCGGGGGCGGTGGCTGTCT 1 60 1 ATAAGGCTCACCAGGCCTACCATGAACGCGAAGAATACTGTAA 3 201 0 GCTGGCCAGGCCTGGGGAGCCTTCTGGTGGAGAGGATATCCTA 3 132 1 GCGGTTCTAACTGAGGCTACCTTCAGCTGGCCAGGCCTGGGGA 3 107 1 TCAAGCCTGACCTCGACGCCCCCCAACAGACAGCCACCGCCCC 1 87 0 GCGGCGTCCGCCGTGGAGATGCTGAAACGCGGTT 1 1 1 TTGAAGCAGGCCTCAGCTTCCTAGGCCTTGGCGCCGTCCCGCC 2 63 1 AGTATGACAGCGCCGAAGTCGAGCGTGAGGTAGACTAGAACAG 2 18 0 TGGGAAGAACACTAGCCACCACGCGTTGGGATAGTACTGTGCA 2 139 0 TGATGGGCCTCCAATTCGCTATACTCCTGGGAGGGGCGGTTCT 3 72 1 CCTATAGGGACTACAGCACCATACAGGGGGTTACAGTATTCTT 3 171 1 GATATAATGGATCCGAGGACTAGGAGGAGGATAGAGTTCAAGG 2 239 1 TAACTGTTAACTATTACACTAGGCAAGGGGTAGTTAATGCACT 0 37 1 TAGTTAATGCACTAGACGGAGTAGAGCTTGATGTATATCAAGG 0 67 1 CTGGGGTTGACTATAGCGTAGATGATGTCGACGATAAGGCTCA 3 234 0 ** * * * * * ** * MAP Score: 18.2428 Motif 5 CTAGACTTTAGGGCCGGGGGCGGTGGCTGTCTGTTG 1 71 1 AGGTACTAAAGGTCAGGGGGTGGTTGCCA 3 281 1 CGCCCATAGCGGACTGGGGTAGGATAATCTATGACG 2 102 1 AGAGTTCAAGGTTAAGGGGAGGTGAGTGGGGA 2 271 1 TTAGTACCTAACCCTGGGGTTGACTATAGCGTAGAT 3 254 0 TATTACACTAGGCAAGGGGTAGTTAATGCACTAGAC 0 48 1 AATTCGCTATACTCCTGGGAGGGGCGGTTCTAACTG 3 84 1 ACCCCAGTCCGCTATGGGCGGGACGGCGCCAAGGCC 2 86 0 ACCTTCAGCTGGCCAGGCCTGGGGAGCCTTCTGGTG 3 125 1 TAGTATGGCTAGGCCTGGGAAGAACACTAGCCACCA 2 161 0 GAGTATGACAGCGCCGAAGTCGAGCGTGAGGTAGAC 2 26 0 GGATCCGAGGACTAGGAGGAGGATAGAGTTCAAGGT 2 247 1 GCGGGACGGCGCCAAGGCCTAGGAAGCTGAGGCCTG 2 69 0 CTACAGCACCATACAGGGGGTTACAGTATTCTTCGC 3 181 1 TATTCTTCGCGTTCATGGTAGGCCTGGTGAGCCTTA 3 207 1 GCGGCGTCCGCCGTGGAGATGCTGAAACGCGGTTT 1 9 1 TATGAGGCTTATCCTGAGCATGTGCACAGCTATCCT 3 23 0 CTCACCGTAGCTGGCGTGGACGTTATCAAGCC 1 123 0 TAAAGTCTAGGGTGTTGGTTAGAGGGTTAACGGTTA 1 45 0 ** * ***** * * MAP Score: 17.6099 Motif 6 GCGGCGTCCGCCGTGGAGATGCTGAAACGCGG 1 7 1 CCGGCCCTAAAGTCTAGGGTGTTGGTTAGAGGGTT 1 53 0 CTGTTGGGGGGCGTCGAGGTCAGGCTTGATAACGT 1 101 1 CAGGCCTCAGCTTCCTAGGCCTTGGCGCCGTCCCG 2 69 1 GGCTAGTGTTCTTCCCAGGCCTAGCCATACTATTC 2 165 1 TTGGCTTCAACCTGCTGGGAGACGCTCTCAGAGAT 2 207 1 AGATATAATGGATCCGAGGACTAGGAGGAGGATAG 2 238 1 AGGAGGATAGAGTTCAAGGTTAAGGGGAGGTGAGT 2 263 1 AGCTGTGCACATGCTCAGGATAAGCCTCATACCAA 3 28 1 AATTCGCTATACTCCTGGGAGGGGCGGTTCTAACT 3 84 1 CTACCTTCAGCTGGCCAGGCCTGGGGAGCCTTCTG 3 123 1 CGCTATAGTCAACCCCAGGGTTAGGTACTAAAGGT 3 259 1 TTAGGTACTAAAGGTCAGGGGGTGGTTGCCA 3 279 1 * *** *** * ** MAP Score: 16.0704 Motif 7 TAACTGTTAACTATTACACTAGGCAAGGGGTAGTTAATGCACT 0 37 1 AACCGCGTTTCAGCATCTCCACGGCGGACGCCGC 1 1 0 ACACCCTAGACTTTAGGGCCGGGGGCGGTGGCTGTCTGTTGGG 1 66 1 TGTTGGGGGGCGTCGAGGTCAGGCTTGATAACGTCCACGCCAG 1 102 1 GCCCTGTTCTAGTCTACCTCACGCTCGACTTCGGCGCTGTCAT 2 15 1 AAGCTGAGGCCTGCTTCAACGAGTATGACAGCGCCGAAGTCGA 2 39 0 GGCGGGACGGCGCCAAGGCCTAGGAAGCTGAGGCCTGCTTCAA 2 63 0 GCCTTGGCGCCGTCCCGCCCATAGCGGACTGGGGTAGGATAAT 2 87 1 GCACAGTACTATCCCAACGCGTGGTGGCTAGTGTTCTTCCCAG 2 140 1 TCTCTGAGAGCGTCTCCCAGCAGGTTGAAGCCAAGTACGGTGA 2 198 0 ATAATGGATCCGAGGACTAGGAGGAGGATAGAGTTCAAGGTTA 2 242 1 GCTCAGGGAGTCTAGGATAGCTGTGCACATGCTCAGGATAA 3 8 1 GCCTCCAATTCGCTATACTCCTGGGAGGGGCGGTTCTAACTGA 3 78 1 TCCCCAGGCCTGGCCAGCTGAAGGTAGCCTCAGTTAGAACCGC 3 107 0 GCGAAGAATACTGTAACCCCCTGTATGGTGCTGTAGTCCCTAT 3 174 0 TTACAGTATTCTTCGCGTTCATGGTAGGCCTGGTGAGCCTTAT 3 201 1 TGAGCCTTATCGTCGACATCATCTACGCTATAGTCAACCCCAG 3 234 1 ** * * * ** ** * MAP Score: 11.6013 Motif 8 TTAACTATTACACTAGGCAAGGGGTAGTTAATGCACT 0 43 1 ACACCCTAGACTTTAGGGCCGGGGGCGGTGGCTGTCT 1 66 1 GGGGCGGTGGCTGTCTGTTGGGGGGCGTCGAGGTCAG 1 87 1 CCCCAGTCCGCTATGGGCGGGACGGCGCCAAGGCCTA 2 84 0 AGTACTATCCCAACGCGTGGTGGCTAGTGTTCTTCCC 2 144 1 ATTCGCTATACTCCTGGGAGGGGCGGTTCTAACTGAG 3 85 1 AGGCTACCTTCAGCTGGCCAGGCCTGGGGAGCCTTCT 3 120 1 GGGTTAGGTACTAAAGGTCAGGGGGTGGTTGCCA 3 276 1 ** ** ***** * MAP Score: 10.2364 Motif 9 AACTATTACACTAGGCAAGGGGTAGTTAATGCACTAGACGGAG 0 45 1 GCGGCGTCCGCCGTGGAGATGCTGAAACGCGGT 1 0 1 ACACCCTAGACTTTAGGGCCGGGGGCGGTGGCTGTCTGTTGGG 1 66 1 GGCGGTGGCTGTCTGTTGGGGGGCGTCGAGGTCAGGCTTGATA 1 89 1 TATGACAGCGCCGAAGTCGAGCGTGAGGTAGACTAGAACAGGG 2 16 0 GACTTCGGCGCTGTCATACTCGTTGAAGCAGGCCTCAGCTTCC 2 41 1 GCAGGCCTCAGCTTCCTAGGCCTTGGCGCCGTCCCGCCCATAG 2 68 1 ACAGTACTATCCCAACGCGTGGTGGCTAGTGTTCTTCCCAGGC 2 142 1 ATCTCTGAGAGCGTCTCCCAGCAGGTTGAAGCCAAGTACGGTG 2 199 0 CTCCAATTCGCTATACTCCTGGGAGGGGCGGTTCTAACTGAGG 3 80 1 AGGCTCCCCAGGCCTGGCCAGCTGAAGGTAGCCTCAGTTAGAA 3 111 0 GGGTTAGGTACTAAAGGTCAGGGGGTGGTTGCCA 3 276 1 ** * *** * * * * MAP Score: 9.51719 Motif 10 GTTAAAACCGCGTTTCAGCATCTCCACGGCGGACGCCGC 1 4 0 GCCACCGCCCCCGGCCCTAAAGTCTAGGGTGTTGGTTAGAGGGTT 1 53 0 GGCCGGGGGCGGTGGCTGTCTGTTGGGGGGCGTCGAGGTCAGGCT 1 82 1 CGAGGTCAGGCTTGATAACGTCCACGCCAGCTACGGTGAG 1 115 1 AGTCGAGCGTGAGGTAGACTAGAACAGGGCCTAGG 2 0 0 CTCGTTGAAGCAGGCCTCAGCTTCCTAGGCCTTGGCGCCGTCCCG 2 59 1 TTATCCTACCCCAGTCCGCTATGGGCGGGACGGCGCCAAGGCCTA 2 84 0 AGCCAAGTACGGTGAATAGTATGGCTAGGCCTGGGAAGAACACTA 2 168 0 ATTCACCGTACTTGGCTTCAACCTGCTGGGAGACGCTCTCAGAGA 2 196 1 TCAGAGATATAATGGATCCGAGGACTAGGAGGAGGATAGAGTTCA 2 234 1 GGATAGAGTTCAAGGTTAAGGGGAGGTGAGTGGGGA 2 267 1 GATGGGCCTCCAATTCGCTATACTCCTGGGAGGGGCGGTTCTAAC 3 73 1 CTAACTGAGGCTACCTTCAGCTGGCCAGGCCTGGGGAGCCTTCTG 3 113 1 GGGGGTTACAGTATTCTTCGCGTTCATGGTAGGCCTGGTGAGCCT 3 196 1 ACATCATCTACGCTATAGTCAACCCCAGGGTTAGGTACTAAAGGT 3 249 1 * * * * ** **** MAP Score: 9.27416 Motif 11 ATTACACTAGGCAAGGGGTAGTTAATGCACTAGA 0 49 1 GCGGCGTCCGCCGTGGAGATGCTGAAAC 1 4 1 AGACTTTAGGGCCGGGGGCGGTGGCTGTCTGTTG 1 73 1 GTGGCTGTCTGTTGGGGGGCGTCGAGGTCAGGCT 1 93 1 CTCACCGTAGCTGGCGTGGACGTTATCAAGCC 1 123 0 TCACGCTCGACTTCGGCGCTGTCATACTCGTTGA 2 33 1 GCCTCAGCTTCCTAGGCCTTGGCGCCGTCCCGCC 2 72 1 CCCCAGTCCGCTATGGGCGGGACGGCGCCAAGGC 2 87 0 CAGTACTATCCCAACGCGTGGTGGCTAGTGTTCT 2 143 1 TAGTGTTCTTCCCAGGCCTAGCCATACTATTCAC 2 168 1 AGAGCGTCTCCCAGCAGGTTGAAGCCAAGTACGG 2 201 0 TATAATGGATCCGAGGACTAGGAGGAGGATAGAG 2 241 1 TCGCTATACTCCTGGGAGGGGCGGTTCTAACTGA 3 87 1 ACTGAGGCTACCTTCAGCTGGCCAGGCCTGGGGA 3 116 1 GCCTGGGGAGCCTTCTGGTGGAGAGGATATCCTA 3 141 1 ACTACAGCACCATACAGGGGGTTACAGTATTCTT 3 180 1 TCGCGTTCATGGTAGGCCTGGTGAGCCTTATCGT 3 213 1 TAGTACCTAACCCTGGGGTTGACTATAGCGTAGA 3 255 0 CTAAAGGTCAGGGGGTGGTTGCCA 3 286 1 ** ***** * ** MAP Score: 9.27397 Motif 12 TAAGAGATCTAACTGTTAACTATTACACTA 0 28 1 ACGCGGTTTTAACCGTTAACCCTCTAACCA 1 36 1 TCAGGCTTGATAACGTCCACGCCAGCTACG 1 120 1 GTTGGGATAGTACTGTGCACCGTCATAGAT 2 128 0 GGCCTAGCCATACTATTCACCGTACTTGGC 2 182 1 ACCTCCCCTTAACCTTGAACTCTATCCTCC 2 264 0 AGTCTAGGATAGCTGTGCACATGCTCAGGA 3 18 1 TCACCAGGCCTACCATGAACGCGAAGAATA 3 207 0 ********** MAP Score: 4.1732 Motif 13 TCTAGTGCATTAACTACCCCTTGCCTAGTGTAATAGT 0 46 0 GCGGCGTCCGCCGTGGAGATGCTGAAAC 1 1 1 AACAGACAGCCACCGCCCCCGGCCCTAAAGTCTAGGG 1 69 0 TTATCAAGCCTGACCTCGACGCCCCCCAACAGACAGC 1 96 0 GGCTTGATAACGTCCACGCCAGCTACGGTGAG 1 123 1 GCCCTGTTCTAGTCTACCTCACGCTCGACTTCGGCGC 2 15 1 ACTTCGGCGCTGTCATACTCGTTGAAGCAGGCCTCAG 2 42 1 TCGTTGAAGCAGGCCTCAGCTTCCTAGGCCTTGGCGC 2 60 1 TAGGCCTTGGCGCCGTCCCGCCCATAGCGGACTGGGG 2 84 1 GGAAGAACACTAGCCACCACGCGTTGGGATAGTACTG 2 143 0 GTGAATAGTATGGCTAGGCCTGGGAAGAACACTAGCC 2 165 0 TCACCGTACTTGGCTTCAACCTGCTGGGAGACGCTCT 2 198 1 AGTCTAGGATAGCTGTGCACATGCTCAGGATAAGCCT 3 18 1 TAACTATGATGGGCCTCCAATTCGCTATACTCCTGGG 3 66 1 GCCTCAGTTAGAACCGCCCCTCCCAGGAGTATAGCGA 3 87 0 TAACTGAGGCTACCTTCAGCTGGCCAGGCCTGGGGAG 3 114 1 TGAGCCTTATCGTCGACATCATCTACGCTATAGTCAA 3 234 1 TCTACGCTATAGTCAACCCCAGGGTTAGGTACTAAAG 3 255 1 TGGCAACCACCCCCTGACCTTTAGTAC 3 283 0 ** * ** * *** * MAP Score: 2.17956 Motif 14 AACTATTACACTAGGCAAGGGGTAGTTAAT 0 45 1 CTAGACTTTAGGGCCGGGGGCGGTGGCTGT 1 71 1 CGGTGGCTGTCTGTTGGGGGGCGTCGAGGT 1 91 1 CTCACCGTAGCTGGCGTGGACGTTATCAAG 1 125 0 TCCACGCCAGCTACGGTGAG 1 135 1 TAGACTAGAACAGGGCCTAGG 2 1 0 GCGCCGAAGTCGAGCGTGAGGTAGACTAGA 2 22 0 ACGAGTATGACAGCGCCGAAGTCGAGCGTG 2 34 0 CCTCAGCTTCCTAGGCCTTGGCGCCGTCCC 2 73 1 CCATAGCGGACTGGGGTAGGATAATCTATG 2 105 1 CACTAGCCACCACGCGTTGGGATAGTACTG 2 143 0 AATAGTATGGCTAGGCCTGGGAAGAACACT 2 169 0 TGGCTTCAACCTGCTGGGAGACGCTCTCAG 2 208 1 CGCTATACTCCTGGGAGGGGCGGTTCTAAC 3 88 1 TTCAGCTGGCCAGGCCTGGGGAGCCTTCTG 3 128 1 GGGGAGCCTTCTGGTGGAGAGGATATCCTA 3 145 1 CAGCACCATACAGGGGGTTACAGTATTCTT 3 184 1 GGCCTACCATGAACGCGAAGAATACTGTAA 3 201 0 CGCGTTCATGGTAGGCCTGGTGAGCCTTAT 3 214 1 GTACCTAACCCTGGGGTTGACTATAGCGTA 3 257 0 TACTAAAGGTCAGGGGGTGGTTGCCA 3 284 1 ********** MAP Score: 0.78105 Motif 15 AACTATTACACTAGGCAAGGGGTAGTTAATGCACTAGACGG 0 45 1 GCGGCGTCCGCCGTGGAGATGCTGAAACGCGGTT 1 3 1 GCCCTAAAGTCTAGGGTGTTGGTTAGAGGGTTAACGGTTAA 1 44 0 ACACCCTAGACTTTAGGGCCGGGGGCGGTGGCTGTCTGTTG 1 66 1 GGGGCGGTGGCTGTCTGTTGGGGGGCGTCGAGGTCAGGCTT 1 87 1 CTCACCGTAGCTGGCGTGGACGTTATCAAGCC 1 123 0 AGCGCCGAAGTCGAGCGTGAGGTAGACTAGAACAGGGCCTA 2 12 0 GAGGCCTGCTTCAACGAGTATGACAGCGCCGAAGTCGAGCG 2 36 0 CGGGACGGCGCCAAGGCCTAGGAAGCTGAGGCCTGCTTCAA 2 63 0 ACACTAGCCACCACGCGTTGGGATAGTACTGTGCACCGTCA 2 133 0 GAATAGTATGGCTAGGCCTGGGAAGAACACTAGCCACCACG 2 159 0 TCTGAGAGCGTCTCCCAGCAGGTTGAAGCCAAGTACGGTGA 2 198 0 TATAATGGATCCGAGGACTAGGAGGAGGATAGAGTTCAAGG 2 241 1 GAGTTCAAGGTTAAGGGGAGGTGAGTGGGGA 2 272 1 CTCCAATTCGCTATACTCCTGGGAGGGGCGGTTCTAACTGA 3 80 1 CCCAGGCCTGGCCAGCTGAAGGTAGCCTCAGTTAGAACCGC 3 107 0 GAATACTGTAACCCCCTGTATGGTGCTGTAGTCCCTATAGG 3 171 0 GTTGACTATAGCGTAGATGATGTCGACGATAAGGCTCACCA 3 231 0 CCTTTAGTACCTAACCCTGGGGTTGACTATAGCGTAGATGA 3 252 0 GGGTTAGGTACTAAAGGTCAGGGGGTGGTTGCCA 3 276 1 ** ** *** * * * MAP Score: 0.59266