SRR3049275

SRA first seen 2021

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

79/100 · C

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

What this means

claude:haiku

Salmonella enterica serovar Bareilly WGS on HiSeq 2500 (1.64M reads, 321M bases, 98.1% Q20, 90.6% Q30, 50.7% GC) with 4-5× estimated coverage and good base quality. Sufficient for SNP typing and detection of common resistance alleles in surveillance applications, though low depth limits comprehensive structural variant discovery.

Data type / assay

WGS

Organism

Salmonella enterica subsp. enterica serovar Bareilly

Instrument

Illumina HiSeq 2500

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 321033866 reported

total reads 1637570 reported

n content pct 0.002 measured

pct q20 bases 98.1 measured

pct q30 bases 90.6 measured

gc content pct 50.7 measured

mean read length 98.9 measured

mean base quality 35.3 measured

adapter content pct 10.23 measured

duplication rate pct 16.65 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 79/100

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 90.6 measured ×1 100%

duplication rate pct 16.65 measured ×0.5 73%

adapter content pct 10.23 measured ×0.4 34%

QC cost 1.1 min compute

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