SRP028965

ENA first seen 2014

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

74/100 · C

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

What this means

claude:haiku

Bird WGS limited by Q30 at 80.0%, the primary constraint marking stringent-threshold acceptability. Minimal duplication (0.74%) is a strength, but quality-aware filtering is required for variant calling.

Data type / assay

WGS

Organism

Colius striatus

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

2 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 36282750000 reported

total reads 181413750 reported

n content pct 0.008 measured

pct q20 bases 88.6 measured

pct q30 bases 80 measured

gc content pct 41.3 measured

mean read length 100 measured

mean base quality 32.3 measured

adapter content pct 0.04 measured

duplication rate pct 0.74 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 74/100

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 80 measured ×1 50%

duplication rate pct 0.74 measured ×0.5 100%

adapter content pct 0.04 measured ×0.4 100%

QC cost 31 s compute

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