AlignACE 3.0 10/20/99 AlignACE2 -i HI/HI_fusions003_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944236248 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 HI0098 216 iron(III) ABC transporter, permease protein (hitB) #1 HI0129 300 H. influenzae predicted coding region HI0129 #2 HI0354 300 ABC transporter, ATP-binding protein #3 HI1187 89 dipeptide ABC transporter, permease protein (dppB) #4 HI1188 300 DNA helicase II (uvrD) #5 HI1347 268 spermidine/putrescine ABC transporter, ATP-binding protein (potA) #6 HI1692 173 molybdenum ABC transporter, permease protein (modB) Motif 1 CAAAGTTAAATCCTTTTAGGAATGTGAACTTTT 0 97 0 CCATTCTGGCTCACTTTACTTATCATCTTAATC 0 142 1 CGTTATGTTTGCCGTTTCTGTATGTCATTTTGC 0 182 1 AACAAGAAAAGCATTTTTAAATTTCTCTTGCTA 2 55 0 TGCCAAAAAATCCATTTTCTTTTCATTCCATTT 2 227 1 TTCTTTTCATTCCATTTCTTATCCTTTCTTTTT 2 243 1 TCTTATCCTTTCTTTTTTATTACGCACTCCCTT 2 259 1 TATTACGCACTCCCTTTAATCATTGAGGCGAGC 2 276 1 AATTTTTACCGCACTTTTATTATCTACGAGTGA 3 62 1 GAGAAACCTTGCATTTTAGGAATGAGAGGTAAA 4 72 1 TGCTTTGAAAGCTATTTTTATACTATTTATAAA 4 120 0 CTATCTTTAATCTGTTTAAATTTACAGTTATTA 4 274 0 ATTCTCGCTCCTTTTAAAAATATCTTTTTTA 5 8 1 TTTAAAAATATCTTTTTTAGTTTAACGAGAAAA 5 22 1 AGGCATTAAGTCCTTTTCATTATTAACAATTCA 5 167 1 ATCATAGGCGTCTATTTTTATATGTCGCCCCTG 5 204 1 GGATATTTCTGCCCTTTTGTTATTATAGAGCAT 6 37 1 AGATAAGGATTCATTTTGCTTACCCAATTTTTT 6 129 1 CCAATTTTTTTCATTTTTCAATCTGACGCCA 6 152 1 *** *** **** MAP Score: 13.1578 Motif 2 TGTATTTGAAAAAATTCACGCACGCGTTTAC 0 27 1 ATTCTCTAACAAAATTAACCGCTTGCGTGCG 0 59 1 AAAATAATCCAAAAATAAGCAGAATGCATTA 1 194 0 GTGCGTAATAAAAAAGAAAGGATAAGAAATG 2 255 0 ACTCTTCAAAGAAATTAATCGGTAAAAAATA 3 25 0 AAGTGCGGTAAAAATTCACCGCACTCTTCAA 3 47 0 TCTCATTCCTAAAATGCAAGGTTTCTCATTT 4 68 0 TTTTAAGAATAATATTAAGCGGGATTCTCCT 4 182 0 TAATAACTGTAAATTTAAACAGATTAAAGAT 4 274 1 CAATATTTATAAAATTAACGAAGTAAAATTC 5 78 1 TTAACGAAGTAAAATTCATCGAAAGTGCGGT 5 92 1 AAATAACGAGAAATTTAACCGCACTTTCGAT 5 109 0 TGCCGTTCATAAAAATAACGAGAAATTTAAC 5 121 0 GGCGACATATAAAAATAGACGCCTATGATAT 5 202 0 TTGGGTAAGCAAAATGAATCCTTATCTAAAT 6 125 0 ******** ** MAP Score: 11.2725 Motif 3 GCGTAATAAAAAAGAAAGGATAAGAAATGGAA 2 252 0 ATTTCTTTGAAGAGTGCGGTGAATTTTTACCG 3 41 1 GTAGATAATAAAAGTGCGGTAAAAATTCACCG 3 57 0 GCATTTTAGGAATGAGAGGTAAACGAATTAAA 4 82 1 AAATTCATCGAAAGTGCGGTTAAATTTCTCGT 5 103 1 TAATAGTCATGAAGGGCGGATATTTCTGCCCT 6 20 1 TATAATAACAAAAGGGCAGAAATATCCGCCCT 6 32 0 ATCCCACATTGATGAGAGGTAAGATGCTCTAT 6 61 0 CAAGGGATTTAAAGAGAGGCTATTTAGATAAG 6 104 1 **** ***** * MAP Score: 9.57197 Motif 4 CATTCTGGCTCACTTTACTTATCATCTTAATCG 0 143 1 CTAAAATTATTATCTAATATCAGT 2 1 1 AATTTAAAAATGCTTTTCTTGTTCCATTCGGAT 2 65 1 GAAACCTAATTGCTTGTTTTTTCTACCAAACAA 2 99 1 GCCAAAAAATCCATTTTCTTTTCATTCCATTTC 2 228 1 TTCTTTTCATTCCATTTCTTATCCTTTCTTTTT 2 243 1 ATTTTTACCGCACTTTTATTATCTACGAGTGAT 3 63 1 AACATTCCTATGCTATTATTGTCATCATGGGTA 4 26 1 GAATCCCGCTTAATATTATTCTTAAAATGTTCT 4 186 1 TCAAGATGTTTTCTATTTTTCTCGTTAAACTAA 5 38 0 GATATTTCTGCCCTTTTGTTATTATAGAGCATC 6 38 1 ATTTTGCTTACCCAATTTTTTTCATTTTTCAAT 6 141 1 * ***** ** ** MAP Score: 9.51896 Motif 5 GAAAAGTTCACATTCCTAAAAGGATTTAACT 0 96 1 AGTTTTTTTGCGTTCATACAACCTCGCAGTA 1 158 0 ACAAGAAAAGCATTTTTAAATTTCTCTTGCT 2 56 0 AAATTCACCGCACTCTTCAAAGAAATTAATC 3 36 0 CAAGGTTTCTCATTTTTCCAAAAATACCCAT 4 52 0 GTTTACCTCTCATTCCTAAAATGCAAGGTTT 4 75 0 ATTAAAAGTTTGTTTATAAATAGTATAAAAA 4 108 1 CGCTTAATATTATTCTTAAAATGTTCTACCC 4 192 1 CTAAAAAAGATATTTTTAAAAGGAGCGAGAA 5 11 0 TATATAACAATATTTATAAAATTAACGAAGT 5 71 1 AAAAAACTGCCGTTCATAAAAATAACGAGAA 5 128 0 CAATTTTTTTCATTTTTCAATCTGACGCCA 6 153 1 ***** ***** MAP Score: 9.02851 Motif 6 TGCCTCGCAGACCGCCATTCTGGCTCACTT 0 128 1 TTCCGTTATGTTTGCCGTTTCTGTATGTCA 0 179 1 CGTTTGCACTTCTGCCTTCCAATGCACTTG 1 236 1 GGGTATCATCTCAGCCTTTCGGCACCCCGA 2 157 0 GTAAAAATTCACCGCACTCTTCAAAGAAAT 3 41 0 GTGAATTTTTACCGCACTTTTATTATCTAC 3 59 1 GAGAAATTTAACCGCACTTTCGATGAATTT 5 103 0 AAAGTAAAAAACTGCCGTTCATAAAAATAA 5 134 0 GGCAGAAATATCCGCCCTTCATGACTATTA 6 20 0 GGCGGATATTTCTGCCCTTTTGTTATTATA 6 34 1 ********** MAP Score: 6.9977 Motif 7 GAAAGTCAGGTTTTCTTTACTGCGAGGTTGT 1 141 1 TTGGATTATTTTATCCTTGTTAGCGTTTGCA 1 213 1 AAAAAATCCATTTTCTTTTCATTCCATTTCT 2 231 1 ATTCCATTTCTTATCCTTTCTTTTTTATTAC 2 251 1 TTCAAGAGTATTATATTTTTTACCGATTAAT 3 12 1 AATGCAAGGTTTCTCATTTTTCCAAAAATAC 4 56 0 CCTTTTAAAAATATCTTTTTTAGTTTAACGA 5 19 1 TATCAAGATGTTTTCTATTTTTCTCGTTAAA 5 42 0 GCGGTTAAATTTCTCGTTATTTTTATGAACG 5 118 1 AACGGCAGTTTTTTACTTTCTAAGGCATTAA 5 145 1 CATTAAGTCCTTTTCATTATTAACAATTCAC 5 170 1 TACCCAATTTTTTTCATTTTTCAATCTGACG 6 149 1 ***** ***** MAP Score: 6.98626 Motif 8 TCCAAATATTGCGTGCGTGTATTTGAAA 0 8 1 AGAATTGTAAACGCGTGCGTGAATTTTTTC 0 34 0 AATTAACCGCTTGCGTGCGTGAACTGAAAA 0 71 1 GTATGTCATTTTGCGTGCGACAGAA 0 201 1 GAAAGTTTTTTTGCGTTCATACAACCTCGC 1 162 0 ********** MAP Score: 6.83261 Motif 9 CCATTCTGGCTCACTTTACTTATCATCTTAATC 0 142 1 TTTCTGTATGTCATTTTGCGTGCGACAGAA 0 196 1 TTATGGAAAGTTTTTTTGCGTTCATACAACCTC 1 164 0 AAAATGCTTTTCTTGTTCCATTCGGATAGAAAC 2 71 1 AAAAATCCATTTTCTTTTCATTCCATTTCTTAT 2 232 1 TCTTATCCTTTCTTTTTTATTACGCACTCCCTT 2 259 1 TTTAAAAATATCTTTTTTAGTTTAACGAGAAAA 5 22 1 CTAAATAGCCTCTCTTTAAATCCCTTGTTTATG 6 98 0 AGATAAGGATTCATTTTGCTTACCCAATTTTTT 6 129 1 CCAATTTTTTTCATTTTTCAATCTGACGCCA 6 152 1 ******* * * * MAP Score: 6.42738 Motif 10 TCGTGACAATCATAGCCGTG 1 0 1 GTATACTTACTCACGGCTATGATTGTCACG 1 11 0 CGATAATTAGCCGTGGGTATACTTACTCAC 1 27 0 TGTTTCAGGTTCACGGGTATCATCTCAGCC 2 171 0 AATTCAAGAGTATTATATTTTTT 3 3 1 ATTATTGTCATCATGGGTATTTTTGGAAAA 4 40 1 ACAATAAGATTTGTGAGTATATCAAAAGTA 4 223 0 TATCCGCCCTTCATGACTATTAAGATTCTA 6 12 0 AATCCCTTGTTTATGGGAATATCCCACATT 6 83 0 ********** MAP Score: 5.29672 Motif 11 TGAAAAGTTCACATTCCTAAAAGGATTTAACTTTGCCTC 0 95 1 CACTTTACTTATCATCTTAATCGGGCTTCCGTTATGTTT 0 153 1 CCCACGGCTAATTATCGTAATAGTAGTTCCCCTTTGGGA 1 40 1 TCTCCGTTGTATCTTAGCAAGAGAAATTTAAAAATGCTT 2 41 1 AACAAGCGTAAACTTACCAACAGTTTTTAGTCGGGGTGC 2 127 1 TAAAAAAGAAAGGATAAGAAATGGAATGAAAAGAAAATG 2 239 0 TGACAATAATAGCATAGGAATGTTGTTTAATGACTTAAT 4 11 0 GTTTATAAATAGTATAAAAATAGCTTTCAAAGCATATGG 4 119 1 CATTTTAAGAATAATATTAAGCGGGATTCTCCTATATCC 4 176 0 GATAGATGGGACTATAATAACTGTAAATTTAAACAGATT 4 260 1 CGAAGTAAAATTCATCGAAAGTGCGGTTAAATTTCTCGT 5 96 1 TTTCTCGTTATTTTTATGAACGGCAGTTTTTTACTTTCT 5 127 1 GATAGAATCTTAATAGTCATGAAGGGCGGATA 6 3 1 AAGATGCTCTATAATAACAAAAGGGCAGAAATATCCGCC 6 34 0 * *** ** * *** MAP Score: 3.18987 Motif 12 GTAAACGCGTGCGTGAATTTTTTCAAATACAC 0 26 0 ACGCACGCAAGCGGTTAATTTTGTTAGAGAAT 0 59 0 AAGTATACCCACGGCTAATTATCGTAATAGTA 1 33 1 CCCTAGGCGAAAGTCAGGTTTTCTTTACTGCG 1 133 1 AGAATGCATTATGGAAAGTTTTTTTGCGTTCA 1 173 0 TTTGAAGAGTGCGGTGAATTTTTACCGCACTT 3 46 1 TATTGTCATCATGGGTATTTTTGGAAAAATGA 4 42 1 ATTTTTATGAACGGCAGTTTTTTACTTTCTAA 5 136 1 TATATCATAGGCGTCTATTTTTATATGTCGCC 5 201 1 GTCATGAAGGGCGGATATTTCTGCCCTTTTGT 6 25 1 **** ** **** MAP Score: 2.72626 Motif 13 TATTGCGTGCGTGTATTTGAAAAAATTCACGCACG 0 16 1 CTTGATTACGGTTTGTTTGAAAGTACTTCAGATGA 1 262 1 GATCTCCGTTGTATCTTAGCAAGAGAAATTTAAAA 2 39 1 GTAAGTTTACGCTTGTTTGGTAGAAAAAACAAGCA 2 109 0 TAAAGGGAGTGCGTAATAAAAAAGAAAGGATAAGA 2 259 0 GTCATCATGGGTATTTTTGGAAAAATGAGAAACCT 4 46 1 GAGAAACCTTGCATTTTAGGAATGAGAGGTAAACG 4 72 1 CGAATTAAAAGTTTGTTTATAAATAGTATAAAAAT 4 105 1 GTAGGGTAGAACATTTTAAGAATAATATTAAGCGG 4 191 0 ACTAAAAAAGATATTTTTAAAAGGAGCGAGAAT 5 8 0 AAAGGACTTAATGCCTTAGAAAGTAAAAAACTGCC 5 148 0 GGATATTTCTGCCCTTTTGTTATTATAGAGCATCT 6 37 1 ** * **** ** * MAP Score: 2.30537 Motif 14 CAAACATAACGGAAGCCCGATTAAGATGATAAG 0 160 0 TACCCTAGGCGAAAGTCAGGTTTTCTTTACTGC 1 131 1 TCGGGGTGCCGAAAGGCTGAGATGATACCCGTG 2 157 1 CGTAGATAATAAAAGTGCGGTAAAAATTCACCG 3 57 0 TGCATTTTAGGAATGAGAGGTAAACGAATTAAA 4 81 1 GATATTTTTAAAAGGAGCGAGAAT 5 1 0 AAAATTCATCGAAAGTGCGGTTAAATTTCTCGT 5 102 1 TTATTTTTATGAACGGCAGTTTTTTACTTTCTA 5 134 1 TAATAGTCATGAAGGGCGGATATTTCTGCCCTT 6 20 1 TACCTCTCATCAATGTGGGATATTCCCATAAAC 6 72 1 *** * * ***** MAP Score: 1.31035