SRR1960051

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

82/100 · B

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

What this means

claude:haiku

Salmonella enterica WGS with solid base quality (Q30=91.3%) but limited by moderate adapter contamination (6.9%) and duplication (19.06%), both scoring in the 58–65 range. The strong Q30 supports variant calling, but adapter content requires standard library QC screening. Acceptable for reuse with precautions.

Data type / assay

WGS

Organism

Salmonella enterica subsp. enterica

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 560946729 reported

total reads 2856680 reported

n content pct 0 measured

pct q20 bases 98.3 measured

pct q30 bases 91.3 measured

gc content pct 51.8 measured

mean read length 98.8 measured

mean base quality 35.5 measured

adapter content pct 6.9 measured

duplication rate pct 19.06 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 82/100

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 91.3 measured ×1 100%

duplication rate pct 19.06 measured ×0.5 65%

adapter content pct 6.9 measured ×0.4 58%

QC cost 55 s compute

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