Questions about snp annotation format in old vcf

[half_programmer]

Hi, all,

In old vcf format, for SNP annotation, the substituion or alternative alleles could be 'A T C G Y S M R K W' etc. Does anyone know some clues about these 'Y S M R K W' etc?
Thank you.

Kindly Regards

[swbarnes2]

Those other letters are codes for ambigous letter. In the context of a SNP, it means a mixed SNP, a heterozygote, if you are dealing with a diploid organism

See here. (rememebring what all the letters means helps remember which letter stands for which pair)

http://en.wikipedia.org/wiki/Nucleic_acid_notation

[half_programmer]

Those other letters are codes for ambigous letter. In the context of a SNP, it means a mixed SNP, a heterozygote, if you are dealing with a diploid organism

See here. (rememebring what all the letters means helps remember which letter stands for which pair)

http://en.wikipedia.org/wiki/Nucleic_acid_notation

Thank you, it really answered my question.