SRX7828350

SRA 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

73/100 · C

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

What this means

claude:haiku

Senna tora WGS critically compromised by 30.51% adapter contamination (scored 0/100) despite adequate Q30 (88.3%). Grade C; aggressive trimming and re-validation are mandatory before assembly or mapping applications.

Data type / assay

WGS

Organism

Senna tora

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 44493918446 reported

total reads 220266923 reported

n content pct 0.005 measured

pct q20 bases 93.7 measured

pct q30 bases 88.3 measured

gc content pct 40.3 measured

mean read length 101 measured

mean base quality 34.6 measured

adapter content pct 30.51 measured

duplication rate pct 10.34 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 73/100

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 88.3 measured ×1 92%

duplication rate pct 10.34 measured ×0.5 93%

adapter content pct 30.51 measured ×0.4 0%

QC cost 14 s compute

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