SRR28257769 · Gut microbiome
SRR28257769
complete
Gut analysis is paused. Unfinished samples are not negative results. This is a mixed-host collection, not a curated human-only cohort.
Open interactive sample report
Taxonomic abundances
| Species | Genus | Abundance (%) |
|---|---|---|
| Clostridium perfringens | Clostridium | 25.1055 |
| Clostridium botulinum | Clostridium | 16.4189 |
| Clostridium estertheticum | Clostridium | 14.1946 |
| Clostridium phytofermentans | Clostridium | 6.4880 |
| Clostridium thermosuccinogenes | Clostridium | 5.6954 |
| Lactococcus lactis | Lactococcus | 4.7961 |
| Paeniclostridium sordellii | Paeniclostridium | 4.5647 |
| Clostridium beijerinckii | Clostridium | 3.4007 |
| Plesiomonas shigelloides | Plesiomonas | 2.3585 |
| Lactococcus garvieae | Lactococcus | 1.9721 |
| Clostridium baratii | Clostridium | 1.9497 |
| Clostridium fallax | Clostridium | 1.3118 |
| Clostridium butyricum | Clostridium | 1.1924 |
| Clostridium carnis | Clostridium | 1.1857 |
| Morganella morganii | Morganella | 1.1845 |
| Enterococcus faecium | Enterococcus | 1.1493 |
| Clostridium sporogenes | Clostridium | 1.0875 |
| Clostridium cochlearium | Clostridium | 0.7691 |
| Clostridium septicum | Clostridium | 0.6046 |
| Enterococcus faecalis | Enterococcus | 0.6012 |
| Clostridium tetani | Clostridium | 0.5971 |
| Enterococcus hirae | Enterococcus | 0.4612 |
| Clostridium isatidis | Clostridium | 0.4098 |
| Clostridium scatologenes | Clostridium | 0.4039 |
| Clostridium ramosum | Clostridium | 0.3906 |
| Clostridium budayi | Clostridium | 0.3613 |
| Clostridium cellulovorans | Clostridium | 0.3513 |
| Lactococcus taiwanensis | Lactococcus | 0.3177 |
| Clostridium argentinense | Clostridium | 0.2729 |
| Paeniclostridium ghonii | Paeniclostridium | 0.2675 |
| Klebsiella pneumoniae | Klebsiella | 0.1363 |
Saved public metadata
{
"run_accession": "SRR28257769",
"study_accession": "PRJNA1083214",
"sample_accession": "SAMN40240920",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "11370",
"base_count": "17377106",
"fastq_bytes": "16288753",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR282/069/SRR28257769/SRR28257769_1.fastq.gz",
"sample_title": "",
"scientific_name": "gut metagenome"
}Public files
Analysis provenance
{
"marker": "16S",
"pipeline": "Archaions v18.8",
"cohort": "Gut, mixed hosts; not curated as a human-only cohort",
"execution_state": "paused_by_user",
"sample_state": "complete",
"read_sampling": "First available reads; not random subsampling",
"input_sha256": "f3a05bd9b6db60adc62314bd6bf8384ebc1291c4e4ef758632f27b65506d1434",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1565.0,
"quality_scores": "No measured quality scores in fetched FASTA",
"classifier_stats": {
"marker": "16s",
"pipeline": "v18.8",
"gpu": "RTX-PRO-6000",
"input_path": "volume-fastq-gz",
"reads_in": 11370,
"reads_skipped": 1806,
"elapsed_seconds": 1.843942932,
"reads_submitted": 11370,
"reads_after_filter": 11370,
"adapter_scan": {
"sampled": 200,
"matched": 31,
"fraction": 0.155,
"adapters_found": {
"27F": 31
},
"should_trim": true
},
"porechop_ran": false,
"porechop_reason": "fast-path: no adapter trimming required"
},
"metadata_coverage": "Saved ENA run fields only. BioSample attributes, study abstracts and file MD5s have not been fetched for this panel."
}