Add allele information to postprocessing?

[sdwfrost]

The reference alignments only contain the *01 alleles for the V genes. Should there be an additional postprocessing step to compare the query sequence to the different allelic forms, if the family and gene is identified?

[spond]

Yes, that would be desirable, but probably in the want (vs need) category for rearrangement mapping for a single host, since, presumably, only a single allelic form will be present.