Figure 2 | Scientific Reports

Figure 2

From: Single-molecular real-time deep sequencing reveals the dynamics of multi-drug resistant haplotypes and structural variations in the hepatitis C virus genome

Figure 2

The flow of determining haplotype codes. The method for determining the haplotype code consists of 4 steps: (1) mapping CCS2 reads to the NS3/NS5A gene sequences using blastn, (2) extracting each codon from the 7 RAV-sites in the CCS2 reads, based on the blastn results, converting each codon of the 7 RAV-sites to three numbers (0, 1, and 2), and combining all codons to make a haplotype. The figure shows the example of the steps, from aligning the CCS2 reads to constructing a haplotype.

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