SRR18996194 · 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 | 30.2406 |
| Lactococcus lactis | Lactococcus | 18.8705 |
| Enterobacter hormaechei | Enterobacter | 10.3079 |
| Enterococcus wangshanyuanii | Enterococcus | 9.1370 |
| Enterococcus columbae | Enterococcus | 7.7306 |
| Enterococcus faecalis | Enterococcus | 5.0405 |
| Enterococcus gallinarum | Enterococcus | 3.3123 |
| Enterococcus avium | Enterococcus | 2.2000 |
| Enterobacter roggenkampii | Enterobacter | 1.7965 |
| Enterococcus moraviensis | Enterococcus | 1.5682 |
| Enterococcus casseliflavus | Enterococcus | 1.4563 |
| Lactococcus taiwanensis | Lactococcus | 0.9287 |
| Lactococcus garvieae | Lactococcus | 0.8677 |
| Enterococcus haemoperoxidus | Enterococcus | 0.7959 |
| Rosenbergiella epipactidis | Rosenbergiella | 0.7113 |
| Morganella morganii | Morganella | 0.5719 |
| Enterococcus hirae | Enterococcus | 0.5188 |
| Enterococcus rotai | Enterococcus | 0.4906 |
| Leuconostoc lactis | Leuconostoc | 0.4325 |
| Enterobacter cloacae | Enterobacter | 0.4045 |
| Enterococcus saccharolyticus | Enterococcus | 0.3866 |
| Leuconostoc mesenteroides | Leuconostoc | 0.3448 |
| Enterobacter asburiae | Enterobacter | 0.3065 |
| Enterococcus gilvus | Enterococcus | 0.2901 |
| Leuconostoc pseudomesenteroides | Leuconostoc | 0.2561 |
| Enterobacter kobei | Enterobacter | 0.2140 |
| Enterobacter ludwigii | Enterobacter | 0.2026 |
| Enterococcus quebecensis | Enterococcus | 0.1717 |
| Lactiplantibacillus plantarum | Lactiplantibacillus | 0.1690 |
| Rosenbergiella collisarenosi | Rosenbergiella | 0.1465 |
| Enterobacter mori | Enterobacter | 0.1300 |
Saved public metadata
{
"run_accession": "SRR18996194",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615858",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "165567",
"base_count": "244479194",
"fastq_bytes": "224337512",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/094/SRR18996194/SRR18996194_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": "3cd461c78269cd5889445745c72686acc8fe64119585926598342a70f25d9463",
"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": 4586,
"elapsed_seconds": 1.7629927489999773,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 10,
"fraction": 0.05,
"adapters_found": {
"BC_FLANK": 8,
"27F": 2
},
"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."
}