Where is EBV decoy sequence in the Cellranger GRCh38 reference genome?

Question

[lh0101]

The GRCh38 reference genome that can be downloaded from 10x genomics is supposed to contain a EBV decoy sequence: but when I look in the genome.fa file there is no chrEBV, which I've read elsewhere is the EBV decoy sequence.

Is the decoy sequence labelled as something else, or is it not in fact included?

Answer 1

[GenoMax]

It is in genome.fa file in refdata-GRCh38-1.0.0 reference archive provided by 10x for cellranger-dna software.

>chrEBV  AC:AJ507799.2  gi:86261677  LN:171823  rl:decoy  M5:6743bd63b3ff2b5b8985d8933c53290a  SP:Human_herpesvirus_4  tp:circular

[lh0101]

You're right, I assumed that the reference was the same as the one for rna-seq (which doesn't contain it), but obviously not.