PRJNA227335

BioProject 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

74/100 · C

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

What this means

claude:haiku

Lactobacillus acidophilus WGS with moderate measured quality (C grade). While Q30 is strong at 93.2%, duplication at 39.68% is problematic and scored 1/100—indicating likely PCR overamplification or repetitive regions. This level inflates variant calls and degrades assembly; recommend aggressive duplicate filtering and experimental validation.

Data type / assay

WGS

Organism

Lactobacillus acidophilus CFH

Instrument

Illumina MiSeq

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

2 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 1260252644 reported

total reads 4173022 reported

n content pct 0.023 measured

pct q20 bases 96.3 measured

pct q30 bases 93.2 measured

gc content pct 38.9 measured

mean read length 151 measured

mean base quality 36.2 measured

adapter content pct 1.11 measured

duplication rate pct 39.68 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 74/100

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 93.2 measured ×1 100%

duplication rate pct 39.68 measured ×0.5 1%

adapter content pct 1.11 measured ×0.4 99%

QC cost 25 s compute

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