SRX6613945

ENA first seen 2020

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

87/100 · 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 short-read data (Lactobacillus crispatus), grade B with 24% duplication rate as the key degrader. For a small bacterial genome, 24% duplication suggests overamplification or bottleneck and will bias abundance quantification. Excellent Q30 metrics (97.2%) and long read length (221bp) support reuse if copy-number sensitive analyses are avoided.

Data type / assay

WGS

Organism

Lactobacillus crispatus

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 379124914 reported

total reads 854245 reported

n content pct 0.011 measured

pct q20 bases 99.2 measured

pct q30 bases 97.2 measured

gc content pct 37.8 measured

mean read length 221.3 measured

mean base quality 37.1 measured

adapter content pct 0 measured

duplication rate pct 24 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 87/100

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 97.2 measured ×1 100%

duplication rate pct 24 measured ×0.5 50%

adapter content pct 0 measured ×0.4 100%

QC cost 28 s compute

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