SRR554369

SRA

Provenance — who produced it, who reused it

Linked to 0 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.

No linked papers found in the corpus yet.

Deep data QC

91/100 · A

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

What this means

claude:haiku

Pseudomonas whole-genome sequencing on Genome Analyzer IIx produced 1.66 million short reads totaling 331 Mb with 92.7% Q20 and 86.6% Q30. The 57.2% GC is elevated relative to typical bacteria, possibly indicating Pseudomonas-specific nucleotide composition; suitable for core-genome assembly or pangenome analysis in environmental isolate screening.

Data type / assay

WGS

Organism

Pseudomonas

Instrument

Illumina Genome Analyzer IIx

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 331574200 reported

total reads 1657871 reported

n content pct 0.011 measured

pct q20 bases 92.7 measured

pct q30 bases 86.6 measured

gc content pct 57.2 measured

mean read length 100 measured

mean base quality 34.5 measured

adapter content pct 0.04 measured

duplication rate pct 3.84 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 91/100

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.

pct q30 bases 86.6 measured ×1 83%

duplication rate pct 3.84 measured ×0.5 100%

adapter content pct 0.04 measured ×0.4 100%

QC cost 24 s compute

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