SRR006411

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

47/100 · F

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

What this means

claude:haiku

Whole-genome sequencing from Nitratidesulfovibrio vulgaris on 454 GS FLX with ~489k reads and moderate quality (93.1% Q20, 24.5% Q30), representing pyrosequencing data with low Q30 rates typical of older chemistry.

Data type / assay

WGS

Organism

Nitratidesulfovibrio vulgaris str. 'Miyazaki F'

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 114862451 reported

total reads 488824 reported

n content pct 0.009 measured

pct q20 bases 93.1 measured

pct q30 bases 24.5 measured

gc content pct 67.1 measured

mean read length 196.2 measured

mean base quality 27.6 measured

adapter content pct 0 measured

duplication rate pct 6.53 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 47/100

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 24.5 measured ×1 0%

duplication rate pct 6.53 measured ×0.5 100%

adapter content pct 0 measured ×0.4 100%

QC cost 15 s compute

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