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. 2016 Jun 24;54(7):1835–1841. doi: 10.1128/JCM.00238-16

TABLE 2.

NS3/4A, NS5A, and NS5B PCR amplification results and comparison between LiPA 2.0 and BLAST-based subtyping methods

LiPA 2.0 subtype Result for gene:
NS3/4A
NS5A
NS5B
Patients (n) Nucleotide coverage (start position-end position) Concordanta (no. [%]) Refinementb (no. [%]) BLAST identity range (%) Patients (n) Nucleotide coverage (start position-end position) Concordanta (no. [%]) Refinementb (no. [%]) BLAST identity range (%) Patients (n) Nucleotide coverage (start position-end position) Concordanta (no. [%]) Refinementb (no. [%]) BLAST identity range (%)
5a 6 1–685 6 (100) 0 89–93 7 1–450 7 (100) 0 87–93 7 1–591 7 (100) 0 92–94
6 1 0 1 (100) 95 9 1–456 0 9 (100) 89–96 9 0 9 (100) 93–97
6a/b 4 0 4 (100) 92–95 3 1–451 0 3 (100) 90–91 3 0 3 (100) 94–95
6c-l 3 0 3 (100) 89–93 8 1–456 0 8 (100) 84–94 7 0 7 (100) 89–95
Total 14 6 (42.9) 8 (57.1) 27 7 (25.9) 20 (74.1) 26 7 (26.9) 19 (73.1)
a

The same subtype was assigned by both methods.

b

Indeterminate subtype from LiPA 2.0 was fully determined at subtype level by BLAST sequencing.