SRR12351767

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

SARS-CoV-2 amplicon sequencing; reference-grade quality (grade A, 100/100). Negligible adapter contamination (0.98%) combined with solid Q30 content (92.3%) and excellent mean base quality (35.7) create an exceptionally clean dataset suitable for high-confidence variant discovery. The very high duplication rate (98.05%) is a technical artifact of amplification but does not compromise underlying sequence integrity.

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 3288044004 reported

total reads 6602498 reported

n content pct 0.003 measured

pct q20 bases 97.4 measured

pct q30 bases 92.3 measured

gc content pct 39.7 measured

mean read length 249 measured

mean base quality 35.7 measured

adapter content pct 0.98 measured

duplication rate pct 98.05 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 92.3 measured ×1 100%

adapter content pct 0.98 measured ×0.5 100%

QC cost 55 s compute

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