SRR032373

ENA first seen 2014

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

53/100 · F

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

What this means

claude:haiku

Bacterial whole-genome sequencing on early Illumina platform. Grade F with score 53/100. Q30 (72.7%) is below acceptable standards for WGS variant discovery, and duplication (10.2%) is creeping upward; together these constrain variant confidence and necessitate aggressive post-processing for any reuse.

Data type / assay

WGS

Organism

Escherichia coli B str. REL606

Instrument

Illumina Genome Analyzer

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 305264556 reported

total reads 8479571 reported

n content pct 0.044 measured

pct q20 bases 93.4 measured

pct q30 bases 72.7 measured

gc content pct 50.6 measured

mean read length 36 measured

mean base quality 31.6 measured

adapter content pct 0.01 measured

duplication rate pct 10.24 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 53/100

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 72.7 measured ×1 14%

duplication rate pct 10.24 measured ×0.5 93%

adapter content pct 0.01 measured ×0.4 100%

QC cost 23 s compute

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