SRR1562157

ENA first seen 2016

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

88/100 · B

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

What this means

claude:haiku

Listeria monocytogenes WGS with grade B quality (88/100). Duplication at 22.51% is the primary QC limiter, indicating moderate PCR bias that could skew variant calls and repeat-region coverage; this matters especially for copy-number-sensitive genomic features. Strong compensating metrics (Q30 98.5%, zero adapter) support reliable sequence accuracy.

Data type / assay

WGS

Organism

Listeria monocytogenes

Instrument

Illumina MiSeq

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 233340781 reported

total reads 788501 reported

n content pct 0.013 measured

pct q20 bases 98.9 measured

pct q30 bases 98.5 measured

gc content pct 38.9 measured

mean read length 147.9 measured

mean base quality 37.9 measured

adapter content pct 0 measured

duplication rate pct 22.51 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 88/100

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 98.5 measured ×1 100%

duplication rate pct 22.51 measured ×0.5 55%

adapter content pct 0 measured ×0.4 100%

QC cost 38 s compute

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