SRR18996173 · 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 | 52.2646 |
| Enterococcus columbae | Enterococcus | 16.5092 |
| Enterococcus avium | Enterococcus | 10.5012 |
| Enterococcus gilvus | Enterococcus | 7.7731 |
| Enterococcus faecalis | Enterococcus | 4.7240 |
| Enterococcus gallinarum | Enterococcus | 1.1006 |
| Enterococcus hirae | Enterococcus | 1.0013 |
| Macrococcus canis | Macrococcus | 0.7045 |
| Enterococcus dispar | Enterococcus | 0.6054 |
| Enterococcus casseliflavus | Enterococcus | 0.5523 |
| Macrococcus brunensis | Macrococcus | 0.4766 |
| Malacoplasma iowae | Malacoplasma | 0.4370 |
| Enterococcus saccharolyticus | Enterococcus | 0.4060 |
| Enterococcus asini | Enterococcus | 0.3999 |
| Enterococcus pallens | Enterococcus | 0.3065 |
| Enterococcus durans | Enterococcus | 0.2968 |
| Enterococcus italicus | Enterococcus | 0.2886 |
| Macrococcus caseolyticus | Macrococcus | 0.2716 |
| Malacoplasma muris | Malacoplasma | 0.2345 |
| Leuconostoc mesenteroides | Leuconostoc | 0.2217 |
| Enterococcus pseudoavium | Enterococcus | 0.2044 |
| Enterococcus mundtii | Enterococcus | 0.1922 |
| Macrococcus bovicus | Macrococcus | 0.1881 |
| Enterobacter hormaechei | Enterobacter | 0.1825 |
| Enterococcus canis | Enterococcus | 0.1574 |
Saved public metadata
{
"run_accession": "SRR18996173",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615849",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "131528",
"base_count": "195486328",
"fastq_bytes": "174692187",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/073/SRR18996173/SRR18996173_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": "26adcab68c32743fb4a7f033877d62b2d30809ebc064654668a48faf92116d77",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1493.0,
"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": 4623,
"elapsed_seconds": 2.1761737629999516,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 4,
"fraction": 0.02,
"adapters_found": {
"27F": 3,
"BC_FLANK": 1
},
"should_trim": false
},
"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."
}