SRR1963373

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

71/100 · C

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

What this means

claude:haiku

WGS with excellent base quality (Q36.9, 96.7% Q30) but severe measured adapter contamination (14.06%, scoring 7/100), indicating incomplete or failed adapter trimming during preprocessing that threatens short-read mapping and de novo assembly. Reuse requires manual retrimming and validation before downstream analysis.

Data type / assay

WGS

Organism

Salmonella enterica subsp. enterica serovar Sinstorf

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 215225281 reported

total reads 1087355 reported

n content pct 0 measured

pct q20 bases 99.4 measured

pct q30 bases 96.7 measured

gc content pct 52 measured

mean read length 99.5 measured

mean base quality 36.9 measured

adapter content pct 14.06 measured

duplication rate pct 19.93 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 71/100

The C 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 96.7 measured ×1 100%

duplication rate pct 19.93 measured ×0.5 63%

adapter content pct 14.06 measured ×0.4 7%

QC cost 15 s compute

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