SRR3049933

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

Salmonella enterica serovar Braenderup WGS on HiSeq 2500 with 736K reads (138M bases, 97.9% Q20, 50.5% GC) providing very low sequencing depth. This shallow coverage is suitable only for confirmation of known variants or SNPs in highly conserved genes, with insufficient depth for de novo assembly or comprehensive variant discovery.

Data type / assay

WGS

Organism

Salmonella enterica subsp. enterica serovar Braenderup

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 138686113 reported

total reads 736375 reported

n content pct 0 measured

pct q20 bases 97.9 measured

pct q30 bases 89.4 measured

gc content pct 50.5 measured

mean read length 98.7 measured

mean base quality 35 measured

adapter content pct 4.94 measured

duplication rate pct 15.5 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 89.4 measured ×1 97%

duplication rate pct 15.5 measured ×0.5 77%

adapter content pct 4.94 measured ×0.4 72%

QC cost 25 s compute

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