ERR552939

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

51/100 · F

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

What this means

claude:haiku

Illumina MiSeq WGS of Mycobacterium tuberculosis complex (942.2k reads, 284.5 Mb, 53.5% GC) with elevated N-content (17.6%) and lower base quality (77.6% Q20, 72.2% Q30). Potential sequencing artifacts or contamination noted. Reuse requires stringent quality filtering and validation before variant calling.

Data type / assay

WGS

Organism

Mycobacterium tuberculosis complex sp.

Instrument

Illumina MiSeq

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 284548628 reported

total reads 942214 reported

n content pct 17.595 measured

pct q20 bases 77.6 measured

pct q30 bases 72.2 measured

gc content pct 53.5 measured

mean read length 151 measured

mean base quality 28.8 measured

adapter content pct 0 measured

duplication rate pct 10.71 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 51/100

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 72.2 measured ×1 11%

duplication rate pct 10.71 measured ×0.5 92%

adapter content pct 0 measured ×0.4 100%

QC cost 15 s compute

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