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The Variant Call Format (VCF) Version 4.2 Specification

The Variant Call Format (VCF) Version Specification (Superseded by the VCF Specification introduced in October 2015)23 Aug 2022 The master Version of this document can be found printing is Version 6a6e44a from that repository, last modified on the date shown The VCF specificationVCF is a text file Format (most likely stored in a compressed manner). It contains meta-information lines, a headerline, and then data lines each containing information about a position in the genome. The Format also has the abilityto contain genotype information on samples for each An example##fileformat= ##fileDate=20090805##source= ##reference=file:///seq/ ##contig=<ID=20,length=62435964,assembly=B36,md5=f126cdf8a6e0c7f379d618ff66beb2da,species="Homo sapiens",taxonomy=x>##phasing=partial##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency">##INFO=<ID=AA,Number=

The ID field indicates the type of structural variant, and can be a colon-separated list of types and subtypes. ID values are case sensitive strings and may not contain whitespace or angle brackets. The first level type must be one of the following: • DEL Deletion relative to the reference • INS Insertion of novel sequence relative to the ...

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