SRX5131542

ENA first seen 2019

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

74/100 · C

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

What this means

claude:haiku

Whole-genome short-read sequencing of wild lettuce (Lactuca saligna) on HiSeq 2500 yielded 2.0 million reads with exceptionally high quality (96.8% ≥Q20, 93.1% ≥Q30). The high per-base accuracy supports reliable SNP and structural variant discovery in this crop wild relative.

Data type / assay

WGS

Organism

Lactuca saligna

Instrument

Illumina HiSeq 2500

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 509299250 reported

total reads 2037197 reported

n content pct 0.002 measured

pct q20 bases 96.8 measured

pct q30 bases 93.1 measured

gc content pct 44.8 measured

mean read length 125 measured

mean base quality 35.5 measured

adapter content pct 0 measured

duplication rate pct 44.91 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 74/100

The C 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 93.1 measured ×1 100%

duplication rate pct 44.91 measured ×0.5 0%

adapter content pct 0 measured ×0.4 100%

QC cost 27 s compute

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