SRX6959895

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

78/100 · C

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

What this means

claude:haiku

L. crispatus WGS with excellent base quality (91.8% Q30) but unexpectedly high duplication (34.81%, scored 16/100)—Grade C. Suitable for SNP discovery in high-copy regions but not structural variant or copy-number studies without duplicate removal.

Data type / assay

WGS

Organism

Lactobacillus crispatus

Instrument

NextSeq 500

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 259221323 reported

total reads 906130 reported

n content pct 0 measured

pct q20 bases 96.3 measured

pct q30 bases 91.8 measured

gc content pct 38.9 measured

mean read length 143.2 measured

mean base quality 34.1 measured

adapter content pct 0 measured

duplication rate pct 34.81 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 78/100

The C 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 91.8 measured ×1 100%

duplication rate pct 34.81 measured ×0.5 16%

adapter content pct 0 measured ×0.4 100%

QC cost 21 s compute

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