SRR3321614

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

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

Whole-genome sequencing of Salmonella enterica serovar Panama via Illumina HiSeq 2500, producing 1.6 million short reads at high quality (96.7% Q20, 89.9% Q30) spanning 318 million bases. Supports genomic epidemiology, virulence profiling, and antimicrobial-resistance characterization of this foodborne pathogen. Coverage depth permitting, suitable for SNV mapping and plasmid detection.

Data type / assay

WGS

Organism

Salmonella enterica subsp. enterica serovar Panama

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 317845000 reported

total reads 1589225 reported

n content pct 0.001 measured

pct q20 bases 96.7 measured

pct q30 bases 89.9 measured

gc content pct 51.7 measured

mean read length 100 measured

mean base quality 35 measured

adapter content pct 3.02 measured

duplication rate pct 21.6 measured

How this grade was computed

Weighted mean of 3 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.

pct q30 bases 89.9 measured ×1 100%

duplication rate pct 21.6 measured ×0.5 57%

adapter content pct 3.02 measured ×0.4 86%

QC cost 19 s compute

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