ERR418064

ENA first seen 2020

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

66/100 · D

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

What this means

claude:haiku

WGS on HiSeq 2000 for Solanum lycopersicum (cultivated tomato) with good quality (94% Q20, 87% Q30). Reference-quality whole-genome sequencing supports structural-variant discovery, population genomics, and trait-locus mapping in this globally important crop.

Data type / assay

WGS

Organism

Solanum lycopersicum

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), BAM/CRAM (aligned)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 32543061100 reported

total reads 162743685 reported

n content pct 0.001 measured

pct q20 bases 94 measured

pct q30 bases 87 measured

gc content pct 46.2 measured

mean read length 100 measured

mean base quality 34.1 measured

adapter content pct 0 measured

duplication rate pct 74.03 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 66/100

The D 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 87 measured ×1 85%

duplication rate pct 74.03 measured ×0.5 0%

adapter content pct 0 measured ×0.4 100%

QC cost 4 s compute

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