SRX6744195

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

95/100 · A

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

What this means

claude:haiku

WGS short-read data (E. coli), grade A despite 17.85% duplication rate. Duplication is the main degrader and suggests PCR amplification bias; however, strong Q30 base quality (91.7%) and zero adapter content support reuse for variant calling if treating duplication-inflated allele frequencies with caution. Unusually sparse read count flags possible sampling.

Data type / assay

WGS

Organism

Escherichia coli

Instrument

HiSeq X Ten

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 180832902 reported

total reads 413264 reported

mean coverage 39.3 extrapolated

n content pct 0 measured

pct q20 bases 95.5 measured

pct q30 bases 91.7 measured

gc content pct 49.5 measured

mean read length 239.4 measured

mean base quality 36.4 measured

adapter content pct 0 measured

duplication rate pct 17.85 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 95/100

The A 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.

mean coverage 39.3 extrapolated ×1.2 100%

pct q30 bases 91.7 measured ×1 100%

duplication rate pct 17.85 measured ×0.5 69%

adapter content pct 0 measured ×0.4 100%

QC cost 12 s compute

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