Annotate with local reference bases (REF_BASES)
Category Variant Annotations
Overview
Local reference context at a variant position. The annotation gives ten reference bases each to the left and right of the variant start and the start base for a total of 21 reference bases. Start position is defined as one base before indels. For example, the reference context AAAAAAAAAACTTTTTTTTTT would apply to a SNV variant context with ref allele C and alt allele G as well as to a deletion variant context with ref allele CT and alt allele C.GATK version 4.2.4.1-SNAPSHOT built at Tue, 4 Jan 2022 16:50:23 -0800.
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