TABLE 3.
Sequence differences observed between HAV strains using the complete VP1 gene
| Comparison of strains | Nucleotide difference (%)a
|
Amino acid difference (%)a
|
||||
|---|---|---|---|---|---|---|
| Range | Mean | SD | Range | Mean | SD | |
| Among all strains | 0-23.5 | 7.47 | 5.33 | 0-10.5 | 1.82 | 1.86 |
| Within genotype I | 0-11.1 | 5.54 | 2.74 | 0-5.6 | 1.22 | 0.9 |
| Within subgenotype IA | 0-8.5 | 3.86 | 1.42 | 0-3.9 | 0.96 | 0.7 |
| Within subgenotype IB | 0.9-9.9 | 4.77 | 1.79 | 0-5.6 | 1.3 | 1.4 |
| Within subgenotype IIIA | 4-5.7 | 4.66 | 0.91 | 1.8-2.8 | 2.36 | 0.51 |
| Between subgenotypes IA and IB | 5.1-11.1 | 9.27 | 1.73 | 0-5.6 | 1.74 | 0.98 |
| Between genotype I and subgenotype IIIA | 18.4-21.4 | 19.87 | 0.57 | 4.6-9.1 | 5.97 | 0.76 |
| Between subgenotypes IA and IIIA | 18.6-21.3 | 19.85 | 0.59 | 4.6-7.7 | 5.91 | 0.65 |
| Between subgenotypes IB and IIIA | 18.4-21.4 | 19.95 | 0.67 | 4.6-9.1 | 6.15 | 1.08 |
| Between subgenotype IIIA and II | 19.9-21.2 | 20.57 | 0.65 | 7-8.1 | 7.73 | 0.63 |
| Between subgenotypes IIIA and IV | 19.6-20.8 | 20.36 | 0.66 | 7.4-9.1 | 8.3 | 0.85 |
| Between subgenotype IIIA and V | 22.1-23.5 | 22.97 | 0.75 | 7-8.8 | 8.2 | 1.04 |
| Between subgenotypes IIIA and VII | 19.8-20.1 | 19.9 | 0.17 | 4.2-5.3 | 4.93 | 0.63 |
| Between genotype I and genotype IV | 19.4-21.5 | 20.18 | 0.39 | 7-10.5 | 7.65 | 0.62 |
| Between subgenotype IA and genotype IV | 19.4-21.2 | 20.18 | 0.39 | 7-9.1 | 7.57 | 0.49 |
| Between subgenotype IB and genotype IV | 19.8-21.5 | 20.31 | 0.55 | 7-10.5 | 7.92 | 0.96 |
| Between genotypes I and V | 18.2-21.4 | 19.01 | 0.46 | 5.6-8.8 | 6.65 | 0.59 |
| Between subgenotype IA and V | 18.2-20 | 18.9 | 0.36 | 6-8.1 | 6.74 | 0.44 |
| Between subgenotype IB and V | 18.6-20.7 | 19.47 | 0.55 | 5.6-8.8 | 6.27 | 0.95 |
| Between genotypes I and II | 12.6-16.7 | 14.07 | 0.88 | 2.1-5.3 | 2.72 | 0.61 |
| Between subgenotype IA and II | 12.6-15.1 | 13.78 | 0.52 | 2.1-4.2 | 2.6 | 0.5 |
| Between subgenotype IB and II | 12.6-16.7 | 15.28 | 1.05 | 2.8-5.3 | 3.2 | 0.75 |
| Between genotypes I and VII | 14-17.8 | 15.25 | 0.6 | 0.7-4.2 | 1.37 | 0.67 |
| Between subgenotype IA and genotype VII | 14-15.9 | 14.41 | 0.41 | 0.7-2.8 | 1.22 | 0.52 |
| Between subgenotype IB and genotype VII | 15-17.8 | 1.05 | 1.05 | 1.1-4.2 | 1.95 | 0.2 |
| Between genotypes II and IV | 21.4 | NA | NA | 9.5 | NA | NA |
| Between genotypes II and V | 20.1 | NA | NA | 8.4 | NA | NA |
| Between genotypes II and VII | 10.6 | NA | NA | 2.8 | NA | NA |
| Between genotypes IV and V | 22 | NA | NA | 5.3 | NA | NA |
| Between genotypes IV and VII | 21.5 | NA | NA | 7.7 | NA | NA |
| Between genotypes V and VII | 20.1 | NA | NA | 7 | NA | NA |
a
Uncorrected p distances multiplied by 100. NA, not applicable because only one complete VP1 sequence from genotypes II, IV, V, and VII was available.