SRR449556

ENA first seen 2015

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

47/100 · F

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 sequencing of maize using Illumina Genome Analyzer II generates 4.4 billion bases across 29 million short reads, offering genomic variant discovery and assembly scaffolding for this polyploid crop. Quality metrics show 76% of bases above Q20 with moderate GC content (45.7%), suitable for SNP calling and structural variant detection in non-repetitive regions.

Data type / assay

WGS

Organism

Zea mays subsp. mays

Instrument

Illumina Genome Analyzer II

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 4386968700 reported

total reads 29246458 reported

n content pct 0.172 measured

pct q20 bases 76 measured

pct q30 bases 64.5 measured

gc content pct 45.7 measured

mean read length 75 measured

mean base quality 30.8 measured

adapter content pct 0.01 measured

duplication rate pct 1.89 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 47/100

The F 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 64.5 measured ×1 0%

duplication rate pct 1.89 measured ×0.5 100%

adapter content pct 0.01 measured ×0.4 100%

QC cost 19 s compute

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