Records in intermediate VCF format

Apologies for jumping into this discussion late. My question is what are the records in the intermediate VCF format? e.g. given two inputs

_Truth_

> 1 10 AT GT,AC 0/1

_Query_

> 1 10 A G 0/1
> 1 11 T C 0/1

What does the intermediate output look like for this matching case?

And for this non-matching case:

_Truth_

> 1 10 AT GT,AC 0/1

_Query_

> 1 10 A G 1/1
> 1 11 T C 1/1

No file, test, or entry point is named. Start by locating the documentation or implementation that defines the intermediate VCF format, then trace the matching and non-matching examples through it. Done means documenting the intermediate records for both cases with an agreed, verifiable answer.

Written by the indexing model from the issue text.