SRP130733

ENA first seen 2018

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

64/100 · D

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

What this means

claude:haiku

Whole-genome sequencing from Shigella flexneri on MiSeq with ~131k reads and modest quality (94.3% Q20, 86.2% Q30), representing very low coverage suitable only for species confirmation or highly targeted variant analysis.

Data type / assay

WGS

Organism

Shigella flexneri

Instrument

Illumina MiSeq

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 76668092 reported

total reads 131313 reported

n content pct 0.001 measured

pct q20 bases 94.3 measured

pct q30 bases 86.2 measured

gc content pct 49 measured

mean read length 291.6 measured

mean base quality 34.7 measured

adapter content pct 0.13 measured

duplication rate pct 48.26 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 64/100

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 86.2 measured ×1 81%

duplication rate pct 48.26 measured ×0.5 0%

adapter content pct 0.13 measured ×0.4 100%

QC cost 12 s compute

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