SRR1262803

ENA first seen 2016

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

52/100 · 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 (Illumina HiSeq 2000). F-grade QC due to critically low mean coverage of 12.2x (extrapolated, not measured)—this single metric scored 19/100 with high weight and drives the failing grade. Additionally, pct_q30_bases at 79.9% is borderline acceptable. Reading is provisional; deep measured coverage assessment is pending before reuse.

Data type / assay

WGS

Organism

Bos taurus

Instrument

Illumina HiSeq 2000

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 32946102989 reported

total reads 165369246 reported

mean coverage 12.2 extrapolated

n content pct 0.019 measured

pct q20 bases 93.7 measured

pct q30 bases 79.9 measured

gc content pct 44 measured

mean read length 103.2 measured

mean base quality 33.4 measured

adapter content pct 0 measured

duplication rate pct 6.36 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 52/100

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.

mean coverage 12.2 extrapolated ×1.2 19%

pct q30 bases 79.9 measured ×1 50%

duplication rate pct 6.36 measured ×0.5 100%

adapter content pct 0 measured ×0.4 100%

QC cost 23 s compute

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