PMC5014772_01
Bootscaning analysis with the following parameters: a window size of 200 bp, a step size of 20 bp, 1000 bootstrap replicates, gapstrip on and neighbor-joining analysis by RDP4. a HBV genotype A2 b HBV genotype G and A2 recombinant. The black arrows indicate the break points of genomic recombination
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Fig1
The Bootscaning analysis using RDP4 software (Martin et al.) revealed the clones represented as the HBV/A2 and the HBV/G/A2 recombinant strain (Fig. 1a, b). These findings indicated co-infection of HBV/A2 and HBV/G/A2. 36 nt insertion in the core region and two stop codons in the precore region were not detected in the recombinant strain because two estimated recombination junction of HBV/G were from approximately nt.192 to nt.1795 (Fig. 1b). The HBV/A2 and the HBV/G/A2 recombinant strain were compared with other registered strains including G/A recombinants by MEGA6.
Phylogenetic analysis. The red arrows indicate the sequences in this case: clone 1 A2, HBV/A2 (Fig. 1a). clone 2 G/A2, HBV/G/A2 recombinant (Fig. 1b)
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Fig2
Figure 2 shows the phylogenetic tree of these strains.