SRR3049360

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

Whole genome sequencing of Salmonella enterica subsp. enterica serovar Panama on an Illumina HiSeq 2500, yielding 1.5 million short reads with excellent Q30 coverage (98%) across 274 million bases. The elevated N-content (0.145%) and elevated GC composition (50.9%) support pathogenic Salmonella genomic characterization.

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 273697744 reported

total reads 1468740 reported

n content pct 0.145 measured

pct q20 bases 99.6 measured

pct q30 bases 98 measured

gc content pct 50.9 measured

mean read length 96.7 measured

mean base quality 36.9 measured

adapter content pct 2.37 measured

duplication rate pct 17.31 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 98 measured ×1 100%

duplication rate pct 17.31 measured ×0.5 71%

adapter content pct 2.37 measured ×0.4 90%

QC cost 1.8 min compute

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