SRR12351817

SRA first seen 2021

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

100/100 · A

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

What this means

claude:haiku

This NovaSeq 6000 amplicon run for SARS-CoV-2 generated 5.5 million short reads (2.75 billion bases)—one of the largest in this amplicon cohort—with good Q20 (97.3%) but lower Q30 (92.1%), suggesting possible library complexity variation or sequencer performance fluctuation. The high read count compensates, permitting deep per-amplicon coverage and extensive sample multiplexing for large surveillance programs.

Data type / assay

amplicon

Organism

Severe acute respiratory syndrome coronavirus 2

Instrument

Illumina NovaSeq 6000

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 2757707370 reported

total reads 5537565 reported

n content pct 0.002 measured

pct q20 bases 97.3 measured

pct q30 bases 92.1 measured

gc content pct 39.6 measured

mean read length 249 measured

mean base quality 35.7 measured

adapter content pct 0.91 measured

duplication rate pct 97.65 measured

How this grade was computed

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

The A 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 92.1 measured ×1 100%

adapter content pct 0.91 measured ×0.5 100%

QC cost 33 s compute

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