SRP049130

ENA first seen 2015

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

73/100 · C

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

What this means

claude:haiku

Rat 16S amplicon (454 long-read, 472 bp reads) with borderline quality. Marginal QC (73/100, C) with Q30 of 81.8% (acceptable but below the 85% standard for high-confidence taxonomy) and critically low extrapolated coverage (1.2x), making it impossible to assess technical replication; high duplication (88.17%) further limits diversity assessment. Reuse not recommended without additional validation data.

Data type / assay

amplicon

Organism

Rattus norvegicus

Instrument

454 GS FLX Titanium

Platform

LS454

Files available

FASTQ (raw reads)

N numbers (samples, groups)

15 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 64837770 reported

total reads 122109 reported

n content pct 0.005 measured

pct q20 bases 95.6 measured

pct q30 bases 81.8 measured

gc content pct 54.1 measured

mean read length 472.3 measured

mean base quality 35.7 measured

adapter content pct 0 measured

duplication rate pct 88.17 measured

mean target coverage 1.2 extrapolated

How this grade was computed

Weighted mean of 2 scored metric(s) → 73/100

The C grade is a transparent weighted average. Each metric below scored from 0–100% against the published amplicon thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 81.8 measured ×1 59%

adapter content pct 0 measured ×0.5 100%

QC cost 1 s compute

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