Users must select the 'SNP Genotyping' application in order to have the RealTimeDesign™ (RTD™) software design assays to detect Single Nucleotide Polymorphisms (SNPs), Multi-Nucleotide Polymorphisms (MNPs) or Insertions/Deletions (InDels). Users need to annotate the polymorphism in one of the following formats:

Single Nucleotide Polymorphism: [C/T] where C and T represent the single base pair mismatch. Alternatively, users can use the IUPAC code for the SNP represented in the following list:

Nucleic acid codes:

R = Purine (A or G) Y = Pyrimidine (C, or T) M = C or A K = T or G W = T or A

S = C or G B = C, T, or G (not A) D = A, T, or G (not C) H = A, T, or C (not G) V = A, C, or G (not T)

N = Any base (A, C, G, or T)

Multi-Nucleotide Polymorphisms:
[CA/GT] where CA and GT represent the multi-nucleotide mismatch

Insertions/Deletions:
[CA/-] where CA represents the insertion.

To review this information while using RealTimeDesign software, use the pull down window for the Legend when designing in Custom mode.