ERR552831

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

80/100 · B

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

What this means

claude:haiku

WGS of Mycobacterium tuberculosis with acceptable but not premium quality. Q30 bases (83.9%) fall below A-grade thresholds and directly impact SNP calling confidence; adapter content is slightly elevated at 0.7%. Suitable for reuse in surveillance or outbreak tracking but not ideal for precision clinical variant interpretation.

Data type / assay

WGS

Organism

Mycobacterium tuberculosis complex sp.

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), submitted files

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 989023714 reported

total reads 4896157 reported

n content pct 0.002 measured

pct q20 bases 93.4 measured

pct q30 bases 83.9 measured

gc content pct 65.3 measured

mean read length 101 measured

mean base quality 32.9 measured

adapter content pct 0.7 measured

duplication rate pct 12.44 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 80/100

The B 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 83.9 measured ×1 70%

duplication rate pct 12.44 measured ×0.5 86%

adapter content pct 0.7 measured ×0.4 100%

QC cost 56 s compute

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