SRP144255

ENA first seen 2018

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

62/100 · D

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

What this means

claude:haiku

Citrobacter freundii amplicon hybrid reads. Borderline: Q30 bases 79.1% (weight 1, measured) at the lower acceptance boundary and 89.83% duplication severely limit amplicon recovery. Adequate for presence/absence calls but risky for copy-number or strain differentiation; proceed with caution.

Data type / assay

amplicon

Organism

Citrobacter freundii ATCC 8090 = MTCC 1658 = NBRC 12681

Instrument

Illumina MiSeq

Platform

ILLUMINA

Read type

hybrid (short+long)

Files available

FASTQ (raw reads)

N numbers (samples, groups)

115 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 20680498636 reported

total reads 53277181 reported

n content pct 0.938 measured

pct q20 bases 84.6 measured

pct q30 bases 79.1 measured

gc content pct 42.9 measured

mean read length 165.7 measured

mean base quality 32.9 measured

adapter content pct 1.63 measured

duplication rate pct 89.83 measured

How this grade was computed

Weighted mean of 2 scored metric(s) → 62/100

The D 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 79.1 measured ×1 46%

adapter content pct 1.63 measured ×0.5 96%

QC cost 21 s compute

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