SRR5414541

ENA first seen 2018

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

49/100 · F

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

What this means

claude:haiku

WGS from Campylobacter coli with poor base quality (Q30=80.5%, mean=33.3) and high duplication (51.5%), both driven by MiSeq platform limitations with this organism. Marginal utility for variant calling; consider resequencing if SNP/indel accuracy is critical.

Data type / assay

WGS

Organism

Campylobacter coli

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 175334177 reported

total reads 333886 reported

n content pct 0.015 measured

pct q20 bases 90.5 measured

pct q30 bases 80.5 measured

gc content pct 35.1 measured

mean read length 260.5 measured

mean base quality 33.3 measured

adapter content pct 0 measured

duplication rate pct 51.51 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 49/100

The F 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 80.5 measured ×1 53%

duplication rate pct 51.51 measured ×0.5 0%

adapter content pct 0 measured ×0.4 100%

QC cost 32 s compute

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