SRR1167859

SRA first seen 2021

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

90/100 · A

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

What this means

claude:haiku

Staphylococcus aureus DAR1370 whole-genome sequencing on HiSeq 2000 with only 54K reads and ~10.8 Mb total bases. This extremely shallow depth (typical bacterial genomes are 4–5 Mb) provides only ~2–3-fold coverage, severely limiting variant calling and assembly accuracy. Useful primarily for rapid taxonomic confirmation or basic presence/absence surveys rather than high-confidence genomic analysis.

Data type / assay

WGS

Organism

Staphylococcus aureus DAR1370

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 10849622 reported

total reads 53711 reported

n content pct 0.022 measured

pct q20 bases 97.1 measured

pct q30 bases 94.2 measured

gc content pct 34.3 measured

mean read length 101 measured

mean base quality 36.5 measured

adapter content pct 7.89 measured

duplication rate pct 3.27 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 90/100

The A 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 94.2 measured ×1 100%

duplication rate pct 3.27 measured ×0.5 100%

adapter content pct 7.89 measured ×0.4 51%

QC cost 3 s compute

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