SRR1969544

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

87/100 · B

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

What this means

claude:haiku

Good-quality WGS from Salmonella enterica Haifa (B grade, 87/100) with strong Q30 (94.9%) but slightly elevated adapter contamination (3.25%, scored 84/100) and moderate duplication (20.25%, scored 62/100) as the limiting factors. Acceptable for most genomic applications with standard QC filtering.

Data type / assay

WGS

Organism

Salmonella enterica subsp. enterica serovar Haifa

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 406085400 reported

total reads 2051521 reported

n content pct 0.002 measured

pct q20 bases 99 measured

pct q30 bases 94.9 measured

gc content pct 52 measured

mean read length 99.3 measured

mean base quality 36.3 measured

adapter content pct 3.25 measured

duplication rate pct 20.25 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 87/100

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 94.9 measured ×1 100%

duplication rate pct 20.25 measured ×0.5 62%

adapter content pct 3.25 measured ×0.4 84%

QC cost 25 s compute

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