SRX2548567

ENA first seen 2017

Provenance — who produced it, who reused it

Linked to 1 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.

Reused by

1 further paper cites this accession but reuse could not be confirmed.

Deep data QC

77/100 · C

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured

Data type / assay

amplicon

Organism

Human immunodeficiency virus 1

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 5272512907 reported

total reads 10734896 reported

n content pct 0.295 measured

pct q20 bases 87.1 measured

pct q30 bases 83.1 measured

gc content pct 40 measured

mean read length 240 measured

mean base quality 33.6 measured

adapter content pct 0.42 measured

duplication rate pct 54.02 measured

How this grade was computed

Weighted mean of 2 scored metric(s) → 77/100

The C grade is a transparent weighted average. Each metric below scored from 0–100% against the published amplicon thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 83.1 measured ×1 66%

adapter content pct 0.42 measured ×0.5 100%

QC cost 41 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0