| Epitope name | Epitope | S | M | H | Hd ± SD | π ± SD | dN-dS | Tajima’s D |
|---|
| 5 | T/B | 1 | 1 | 2 | 0.124 ± 0.033 | 0.003 ± 0.007 | 0.003 | − 0.308 |
| 16 | T/B | 1 | 1 | 2 | 0.503 ± 0.000 | 0.012 ± 0.000 | 0.016 | 1.942 |
| 18 | B | 1 | 1 | 2 | 0.503 ± 0.000 | 0.011 ± 0.000 | 0.014 | 1.942 |
| 20 | T/B | 1 | 1 | 2 | 0.503 ± 0.000 | 0.015 ± 0.000 | 0.019 | 1.942 |
| 45 | B | 5 | 5 | 8 | 0.674 ± 0.024 | 0.029 ± 0.001 | 0.036* | 0.966 |
| 48 | B | 2 | 2 | 3 | 0.266 ± 0.039 | 0.007 ± 0.001 | 0.008* | − 0.333 |
| 66 | T | 1 | 1 | 2 | 0.273 ± 0.039 | 0.006 ± 0.001 | 0.008 | 0.576 |
| Ia | MHC class I | 3 | 3 | 4 | 0.491 ± 0.041 | 0.028 ± 0.003 | 0.034* | 0.757 |
| Ib | MHC class I | 1 | 1 | 2 | 0.024 ± 0.016 | 0.001 ± 0.001 | 0.001 | − 0.901 |
| Ic | MHC class I | 1 | 1 | 2 | 0.502 ± 0.005 | 0.012 ± 0.000 | 0.015 | 1.937 |
| IIa | MHC class II | 1 | 1 | 2 | 0.373 ± 0.034 | 0.012 ± 0.001 | 0.016 | 1.169 |
| IIb | MHC class II | 2 | 2 | 3 | 0.375 ± 0.042 | 0.015 ± 0.002 | 0.018 | 0.181 |
- Notes: Epitope sequences are: 5 [299-VNNTDTNFH(R/S)DITFR-313]; 16 [321-LIYDAAVEGDLL(L/F)KL-335]; 18 [325-AAVEGDLL(L/F)KLNNYR-339]; 20 [329-GDLL(L/F)KLNNYRYNKD-343]; 45 [379-SIFGT(D/G)(E/K)(K/N)AQQ(R/H)(R/C)KQ-393]; 48 [385-(E/K)(K/N)AQQ(R/H)(R/C)KQWWNESK-399]; and 66 [421-ICK(L/I)NVAVNIEPQIY-435]. In silico predicted promiscuous epitopes: Ia [416-G(N/K)F(I/M)WICK(L/I)-424]; Ib [482-KSYD(Q/E)WITR-490]; Ic [497-VLSNKF(I/K)SVKNAEK-510]; IIa [408-YSVKKRLKG(N/K)-417]; and IIb [418-F(I/M)WICK(L/I)NV-426]
- Abbreviations: S, number of polymorphic (segregating) sites; M, total number of mutations; H, number of haplotypes; Hd, haplotype diversity; π, observed average pairwise nucleotide diversity; dN, rate of non-synonymous mutations; dS, rate of synonymous mutations; B, B-cell epitope; T, T-cell epitope; SD, standard deviation
- *P < 0.05
