SRR18996189 · 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 | 27.8772 |
| Lactococcus lactis | Lactococcus | 16.0436 |
| Enterococcus columbae | Enterococcus | 9.0659 |
| Enterococcus gallinarum | Enterococcus | 8.8649 |
| Enterococcus casseliflavus | Enterococcus | 6.4592 |
| Providencia rettgeri | Providencia | 4.9180 |
| Enterococcus avium | Enterococcus | 4.4540 |
| Klebsiella pneumoniae | Klebsiella | 4.3051 |
| Obesumbacterium proteus | Obesumbacterium | 3.3805 |
| Lactococcus garvieae | Lactococcus | 2.6368 |
| Providencia alcalifaciens | Providencia | 2.2603 |
| Morganella morganii | Morganella | 1.4962 |
| Carnobacterium maltaromaticum | Carnobacterium | 0.9879 |
| Citrobacter freundii | Citrobacter | 0.9596 |
| Klebsiella oxytoca | Klebsiella | 0.8061 |
| Lactococcus taiwanensis | Lactococcus | 0.7763 |
| Enterococcus faecalis | Enterococcus | 0.7620 |
| Klebsiella aerogenes | Klebsiella | 0.7113 |
| Klebsiella michiganensis | Klebsiella | 0.6238 |
| Leifsonia xyli | Leifsonia | 0.5392 |
| Enterococcus saccharolyticus | Enterococcus | 0.3633 |
| Enterococcus wangshanyuanii | Enterococcus | 0.3433 |
| Enterococcus hirae | Enterococcus | 0.2908 |
| Carnobacterium divergens | Carnobacterium | 0.2585 |
| Enterococcus dispar | Enterococcus | 0.2474 |
| Klebsiella quasipneumoniae | Klebsiella | 0.2299 |
| Aeromonas enteropelogenes | Aeromonas | 0.1820 |
| Providencia stuartii | Providencia | 0.1570 |
Saved public metadata
{
"run_accession": "SRR18996189",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615862",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "121342",
"base_count": "178692527",
"fastq_bytes": "162540979",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/089/SRR18996189/SRR18996189_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": "4896e5db8f5654bd06a742fffbd7e86a59115f68a32b4a2f1974a4a7a3e79f44",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1486.0,
"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": 5059,
"elapsed_seconds": 2.100200099999938,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 33,
"fraction": 0.165,
"adapters_found": {
"BC_FLANK": 24,
"27F": 9
},
"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."
}