From: BatchPrimer3: A high throughput web application for PCR and sequencing primer design
IUB/IUPAC Code of a SNP | Alleles of a SNP | Mismatch at the 3' end (forward/reverse) | Mismatch strength at the 3' end | Second mismatch at the third or other position from the 3' end |
---|---|---|---|---|
R | G/A | G/T | Weak | G/A, T/C |
 |  | A/C | Weak | A/G, C/T |
Y | T/C | G/T | Weak | G/A, T/C |
 |  | A/C | Weak | A/G, C/T |
S | G/C | G/G | Medium | C/C, A/A, G/G, T/T |
 |  | C/C | Medium | C/C, A/A, G/G, T/T |
W | A/T | A/A | Medium | C/C, A/A, G/G, T/T |
 |  | T/T | Medium | C/C, A/A, G/G, T/T |
K | G/T | G/A | Strong | G/T, A/C |
 |  | T/C | Strong | T/G, C/A |
M | A/C | G/A | Strong | G/T, A/C |
 |  | T/C | Strong | T/G, C/A |