Corpus 1,280 assessed · 1,181 scored · 646 reproduced ≥75 · 170 flagged ·∅ 74/100
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SRR1969478

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

84/100 · B

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

What this means
claude:haiku

HiSeq 2500 whole-genome sequencing of *Salmonella enterica* serovar Panama achieves 99.9% Q20 bases and 98.9% Q30 across 1.1M reads, yielding assembly-grade quality for reconstructing this pathogen's complete genome and detecting antibiotic resistance loci. The small bacterial genome requires only ~30 Mb coverage for high-confidence SNP calling and phylogenetic placement. Search: *Salmonella enterica* WGS, bacterial genomics, serovar Panama.

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 214443508 reported
total reads 1111224 reported
n content pct 0 measured
pct q20 bases 99.9 measured
pct q30 bases 98.9 measured
gc content pct 50.5 measured
mean read length 98 measured
mean base quality 37.3 measured
adapter content pct 4.25 measured
duplication rate pct 21.63 measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 84/100

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 98.9 measured ×1 100%
duplication rate pct 21.63 measured ×0.5 57%
adapter content pct 4.25 measured ×0.4 77%
QC cost 18 s compute

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