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Table 1 The mismatches at the 3' end and the second mismatches at the third or other position from the 3' end in an allele-specific primer

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