ERP000809

ENA first seen 2015

Provenance — who produced it, who reused it

Linked to 3 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

3 further papers cite this accession but reuse could not be confirmed.

Deep data QC

76/100 · C

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

Data type / assay

WGS

Organism

Streptococcus pneumoniae

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), BAM/CRAM (aligned)

N numbers (samples, groups)

681 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 493308091250 reported

total reads 2887160347 reported

n content pct 0.005 measured

pct q20 bases 98.9 measured

pct q30 bases 95.6 measured

gc content pct 40.2 measured

mean read length 75 measured

mean base quality 40.3 measured

adapter content pct 0 measured

duplication rate pct 37.76 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 76/100

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

pct q30 bases 95.6 measured ×1 100%

duplication rate pct 37.76 measured ×0.5 7%

adapter content pct 0 measured ×0.4 100%

QC cost 10 s compute

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