SRR007446

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

44/100 · F

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

What this means

claude:haiku

WGS of the chemosynthetic bacterium Thioalkalivibrio sulfidiphilus from a 454 GS FLX platform with moderate read count (438k reads, 125 Mb bases) but very low Q30 (21%). The long reads help resolve repeats and gene cluster organization, though base quality issues limit variant discovery accuracy.

Data type / assay

WGS

Organism

Thioalkalivibrio sulfidiphilus HL-EbGr7

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 125428021 reported

total reads 438386 reported

n content pct 0.036 measured

pct q20 bases 91.6 measured

pct q30 bases 21.1 measured

gc content pct 65.2 measured

mean read length 204.8 measured

mean base quality 26.1 measured

adapter content pct 0 measured

duplication rate pct 12.32 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 44/100

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 21.1 measured ×1 0%

duplication rate pct 12.32 measured ×0.5 87%

adapter content pct 0 measured ×0.4 100%

QC cost 34 s compute

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