Toolbox | Resequencing () | Compare Variants | Compare Sample Variant Tracks
In the first step of the dialog, you select the variant track that should be taken as input. Clicking Next shows the dialog in figure 26.32.
At the top, select the comparison track. Below, you can choose whether the result should be the variants from the input that match the comparison track, or whether it should be the variants that are different from the variant track. The match criterion here is an exact match on the position and allele sequence.