1000G high coverage depth of sequencing?

Question

[Tommy Carstensen]

A number of 1000G samples were sequenced to high coverage:

ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/working/20140502_sample_summary_info/20140502.high_coverage_pcr_bams

What is the sequencing depth of these samples?

Answer 1

[Adam]

They're at least 30X, but can average a bit higher. See the link below (which can be quite slow) for an example.

http://bam.iobio.io/?bam=http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/data/HG00096/high_coverage_alignment/HG00096.wgs.ILLUMINA.bwa.GBR.high_cov_pcr_free.20140203.bam&region=1

[Tommy Carstensen]

Very neat website that sub samples the reads instead of checking them all. It's a lot faster than running samtools flagstat across the entire bam file. Thanks.

[poisonAlien]

Wow! nice website.