SRR18996193 · 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 (%) |
|---|---|---|
| Carnobacterium maltaromaticum | Carnobacterium | 26.7857 |
| Enterococcus faecium | Enterococcus | 18.7726 |
| Lactococcus lactis | Lactococcus | 11.4398 |
| Enterococcus faecalis | Enterococcus | 9.2971 |
| Enterococcus columbae | Enterococcus | 6.0963 |
| Carnobacterium divergens | Carnobacterium | 4.6334 |
| Enterococcus wangshanyuanii | Enterococcus | 3.6777 |
| Lactococcus garvieae | Lactococcus | 2.7651 |
| Enterobacter hormaechei | Enterobacter | 2.4109 |
| Carnobacterium gallinarum | Carnobacterium | 2.3602 |
| Enterococcus gallinarum | Enterococcus | 1.5078 |
| Enterococcus avium | Enterococcus | 1.4660 |
| Morganella morganii | Morganella | 1.3939 |
| Enterococcus casseliflavus | Enterococcus | 0.7782 |
| Enterococcus moraviensis | Enterococcus | 0.6997 |
| Enterococcus haemoperoxidus | Enterococcus | 0.6131 |
| Citrobacter freundii | Citrobacter | 0.5895 |
| Enterococcus hirae | Enterococcus | 0.5197 |
| Rahnella aquatilis | Rahnella | 0.5001 |
| Enterococcus rotai | Enterococcus | 0.4304 |
| Enterobacter roggenkampii | Enterobacter | 0.4230 |
| Lactococcus taiwanensis | Lactococcus | 0.4171 |
| Citrobacter amalonaticus | Citrobacter | 0.3508 |
| Enterobacter cloacae | Enterobacter | 0.3286 |
| Enterococcus quebecensis | Enterococcus | 0.2973 |
| Enterococcus saccharolyticus | Enterococcus | 0.2609 |
| Carnobacterium mobile | Carnobacterium | 0.2581 |
| Enterococcus ureasiticus | Enterococcus | 0.2045 |
| Carnobacterium funditum | Carnobacterium | 0.2007 |
| Enterococcus gilvus | Enterococcus | 0.1928 |
| Enterobacter asburiae | Enterobacter | 0.1726 |
| Enterococcus canis | Enterococcus | 0.1564 |
Saved public metadata
{
"run_accession": "SRR18996193",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615859",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "94018",
"base_count": "138832446",
"fastq_bytes": "126998200",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/093/SRR18996193/SRR18996193_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": "0121a338ce06955fee8d627f4ccd2134fb37d133e946493f3310443620ab99de",
"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": 3960,
"elapsed_seconds": 2.062734420999959,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 10,
"fraction": 0.05,
"adapters_found": {
"27F": 7,
"BC_FLANK": 3
},
"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."
}