Table 4 Haplotype analysis in 36 strains for all SNP-containing amplicons
number of haplotypes | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | Â |
2 SNPs | 46 | 57 | 8 | Â | Â | Â | Â | Â | Â | Â | Â | Â |
3 SNPs | 11 | 26 | 8 | 3 | 0 | 0 | 0 | Â | Â | Â | Â | Â |
4 SNPs | 4 | 11 | 5 | 3 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | Â |
5 SNPs | 1 | 3 | 3 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | Â |
6 SNPs | 1 | 1 | 1 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | Â |
7 SNPs | 1 | 0 | 1 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | Â |
8 SNPs | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | Â |
9 SNPs | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | Â |
10 SNPs | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | Â |
11 SNPs | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | Â |
total | 64 | 97 | 27 | 9 | 5 | 1 | 0 | 0 | 0 | 0 | 1 | 204* |