SRX103175

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

88/100 · B

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

What this means

claude:haiku

WGS of Bos mutus from HiSeq 2000, 53.6M reads, 10.7B bases. Grade B (88/100, all measured) with perfect Q30 and Q20; duplication of 22.94% (scored 53/100) is the main limiting factor, indicating some PCR over-amplification. Otherwise strong quality suitable for variant discovery in mammals.

Data type / assay

WGS

Organism

Bos mutus

Instrument

Illumina HiSeq 2000

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 10729879600 reported

total reads 53649398 reported

n content pct 0.052 measured

pct q20 bases 100 measured

pct q30 bases 100 measured

gc content pct 42.3 measured

mean read length 100 measured

mean base quality 30 measured

adapter content pct 0.01 measured

duplication rate pct 22.94 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 88/100

The B 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 100 measured ×1 100%

duplication rate pct 22.94 measured ×0.5 53%

adapter content pct 0.01 measured ×0.4 100%

QC cost 19 s compute

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