Where does the Ancestral Allele Information for your variants come from?

The ancestral alleles associated with the phase 1 release where generated using two different processes.

The SNP ancestral alleles were derived from Ensembl Compara release 59. The alignments used to generate them can be found in the phase1/supporting directory.

The indel ancestral alleles were generated using an separate process

The deletions should not have any ancestral alleles

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