SRR18996199 · Gut microbiome
gut metagenome
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 (%) |
|---|---|---|
| Enterococcus faecium | Enterococcus | 24.0824 |
| Enterococcus faecalis | Enterococcus | 19.8555 |
| Vespertiliibacter pulmonis | Vespertiliibacter | 18.9038 |
| Enterococcus columbae | Enterococcus | 8.2936 |
| Brochothrix campestris | Brochothrix | 5.2122 |
| Macrococcus canis | Macrococcus | 4.2358 |
| Macrococcus brunensis | Macrococcus | 2.3874 |
| Streptococcus iniae | Streptococcus | 1.7188 |
| Macrococcus caseolyticus | Macrococcus | 1.3454 |
| Streptococcus mitis | Streptococcus | 1.2775 |
| Brochothrix thermosphacta | Brochothrix | 1.1414 |
| Macrococcus bovicus | Macrococcus | 0.9792 |
| Macrococcus epidermidis | Macrococcus | 0.9406 |
| Macrococcus goetzii | Macrococcus | 0.9406 |
| Enterococcus avium | Enterococcus | 0.9239 |
| Streptococcus salivarius | Streptococcus | 0.8567 |
| Enterococcus hirae | Enterococcus | 0.8073 |
| Streptococcus downei | Streptococcus | 0.7980 |
| Streptococcus pyogenes | Streptococcus | 0.7759 |
| Macrococcus equipercicus | Macrococcus | 0.6053 |
| Macrococcus hajekii | Macrococcus | 0.5646 |
| Providencia alcalifaciens | Providencia | 0.4821 |
| Enterococcus casseliflavus | Enterococcus | 0.4760 |
| Streptococcus agalactiae | Streptococcus | 0.4611 |
| Streptococcus parauberis | Streptococcus | 0.4176 |
| Malacoplasma iowae | Malacoplasma | 0.3679 |
| Enterococcus saccharolyticus | Enterococcus | 0.3096 |
| Serratia rubidaea | Serratia | 0.3045 |
| Enterococcus gallinarum | Enterococcus | 0.2774 |
| Macrococcus lamae | Macrococcus | 0.2580 |
Saved public metadata
{
"run_accession": "SRR18996199",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615853",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "104788",
"base_count": "155904318",
"fastq_bytes": "141903720",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/099/SRR18996199/SRR18996199_1.fastq.gz",
"sample_title": "gut metagenome",
"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": "e52700becf1b6b5cdc419ced5339c623a2a51dd05d294235a9b2c3f2ff6f1b5f",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1492.0,
"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": 20000,
"reads_skipped": 12036,
"elapsed_seconds": 1.6343926100000772,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 13,
"fraction": 0.065,
"adapters_found": {
"27F": 2,
"BC_FLANK": 11
},
"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."
}