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Table 5 Codon-by-codon analysis of Gag-protease polymorphisms and viral replication capacity (VRC) for A1

From: Subtype-specific differences in Gag-protease replication capacity of HIV-1 isolates from East and West Africa

Consensus AA/Codon AA Signal Median VRC with AA Median VRC without AA No. of patients with AA No. of patients without AA p-value q-value A-list epitope
K12 K 0.68 0.23 52 8 0.045 0.862 GI9 (HLA B*40:02)
K28 K 0.69 0.47 45 13 0.008 0.862 RK9 and RY10 (HLA A*03:01)
A67 A 0.63 0.82 57 5 0.023 0.862
K69 Q 0.77 0.63 8 52 0.048 0.862
S125 N 0.76 0.63 8 52 0.042 0.862 NY9 (HLA B*35:01)
L147 I 0.79 0.63 5 55 0.039 0.862 GI8 (HLA B*13:02), HL9 (HLA B*15:10), QW11 (HLA A*25:01), IW9 (HLA B*57:01, B*63)
V158 V 0.63 0.75 54 9 0.038 0.862 VF (HLA B*15:03)
V158 A 0.75 0.63 9 54 0.038 0.862
I223 I 0.63 0.73 49 14 0.028 0.862 HA9 (HLA B*35:01, B7)
R380 K 0.75 0.63 9 53 0.036 0.862
P497 L 0.54 0.68 16 42 0.021 0.862
  1. aThis column represents the consensus amino acid at specified at that locus; bThis column represents the amino acid variant being reported by the codon analysis; cA-list epitope as available from http://www.lanl.com