SRX1660382

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

86/100 · 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 (cattle) provides ~59.7 Gb from ~239 million reads at 22.1× coverage with high quality (96% Q20, 92% Q30), enabling livestock-genome variant discovery and breeding genomics. The dataset supports mammalian population genomics. Researchers seeking cattle genomics or livestock WGS 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 59791830000 reported

total reads 239167320 reported

mean coverage 22.1 extrapolated

n content pct 0.002 measured

pct q20 bases 96 measured

pct q30 bases 92 measured

gc content pct 42.7 measured

mean read length 125 measured

mean base quality 36 measured

adapter content pct 0 measured

duplication rate pct 5.03 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 86/100

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 22.1 extrapolated ×1.2 64%

pct q30 bases 92 measured ×1 100%

duplication rate pct 5.03 measured ×0.5 100%

adapter content pct 0 measured ×0.4 100%

QC cost 11 s compute

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