VCF file format

Question

[lilly]

Here is the vcf file format,

| CHROM | POS | ID |REF | ALT | 
|:---- |:------:| -----:|:---- |:------:| -----:|
| chr1  | 11    | . | G | CT
| chr1  | 12    | . | G | A 
| chr1  | 13    | . | T | C
| chr1  | 14    | . | TGT | T

In this file format, G--> CT and TGT-->T will be considered as SNVs?##

Answer 1

[harold.smith.tarheel]

SNV is the acronym for single nucleotide variant. It applies only to variants where one nucleotide is replaced by another. Your two examples do not fit this criterion. G -> CT is a one-nucleotide insertion plus nucleotide substitution, and TGT -> T is a deletion of two nucleotides.