SRX1660380

SRA first seen 2019

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

85/100 · B

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

What this means

claude:haiku

This Illumina HiSeq 2500 WGS of Bos taurus provides ~57.4 Gb from ~229 million reads at 21.3× coverage with high quality (96.4% Q20, 92.9% Q30), enabling cattle-genome variant discovery and breeding studies. Researchers seeking livestock genomics will find this valuable.

Data type / assay

WGS

Organism

Bos taurus

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 57477992500 reported

total reads 229911970 reported

mean coverage 21.3 extrapolated

n content pct 0.005 measured

pct q20 bases 96.4 measured

pct q30 bases 92.9 measured

gc content pct 43.1 measured

mean read length 125 measured

mean base quality 36.1 measured

adapter content pct 0 measured

duplication rate pct 5.18 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 85/100

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.

mean coverage 21.3 extrapolated ×1.2 61%

pct q30 bases 92.9 measured ×1 100%

duplication rate pct 5.18 measured ×0.5 100%

adapter content pct 0 measured ×0.4 100%

QC cost 13 s compute

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