SRR013137

SRA first seen 2012

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

21/100 · 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 legacy 454 platform. Grade F with score 21/100. The critically low Q30 (20.5%) and elevated duplication (44.4%) both degrade assembly quality; Q30 undermines contig accuracy while duplication artificially inflates coverage, both fatal for de novo genome assembly work.

Data type / assay

WGS

Organism

[Acidovorax] ebreus TPSY

Instrument

454 GS FLX

Platform

LS454

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 44068458 reported

total reads 161655 reported

n content pct 0.031 measured

pct q20 bases 93.3 measured

pct q30 bases 20.5 measured

gc content pct 65.1 measured

mean read length 238.8 measured

mean base quality 26.4 measured

adapter content pct 0 measured

duplication rate pct 44.41 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 21/100

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 20.5 measured ×1 0%

duplication rate pct 44.41 measured ×0.5 0%

adapter content pct 0 measured ×0.4 100%

QC cost 21 s compute

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