SRR18996190 · 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 (%) |
|---|---|---|
| Enterobacter hormaechei | Enterobacter | 17.8751 |
| Malacoplasma iowae | Malacoplasma | 16.1691 |
| Providencia rettgeri | Providencia | 16.0907 |
| Enterococcus faecium | Enterococcus | 8.9474 |
| Malacoplasma muris | Malacoplasma | 7.9894 |
| Providencia alcalifaciens | Providencia | 7.0907 |
| Enterobacter roggenkampii | Enterobacter | 3.0392 |
| Brochothrix campestris | Brochothrix | 2.9706 |
| Malacoplasma penetrans | Malacoplasma | 2.7572 |
| Macrococcus canis | Macrococcus | 2.5710 |
| Enterococcus columbae | Enterococcus | 2.3565 |
| Enterobacter cloacae | Enterobacter | 1.1192 |
| Providencia rustigianii | Providencia | 0.9846 |
| Enterococcus faecalis | Enterococcus | 0.9398 |
| Macrococcus brunensis | Macrococcus | 0.8850 |
| Brochothrix thermosphacta | Brochothrix | 0.8362 |
| Macrococcus caseolyticus | Macrococcus | 0.7896 |
| Enterobacter asburiae | Enterobacter | 0.7630 |
| Macrococcus goetzii | Macrococcus | 0.7512 |
| Macrococcus epidermidis | Macrococcus | 0.7512 |
| Providencia thailandensis | Providencia | 0.7091 |
| Macrococcus bovicus | Macrococcus | 0.6779 |
| Enterococcus avium | Enterococcus | 0.5899 |
| Providencia stuartii | Providencia | 0.5393 |
| Macrococcus equipercicus | Macrococcus | 0.5053 |
| Macrococcus hajekii | Macrococcus | 0.4735 |
| Enterobacter kobei | Enterobacter | 0.4720 |
| Enterobacter ludwigii | Enterobacter | 0.3563 |
Saved public metadata
{
"run_accession": "SRR18996190",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615861",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "87290",
"base_count": "129172323",
"fastq_bytes": "120008819",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/090/SRR18996190/SRR18996190_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": "afa538f2f7a8a54879c8ec0005dcf8c8b1db47e03b8fb4f702151c445d672050",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1485.0,
"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": 11645,
"elapsed_seconds": 1.4220074659999682,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 25,
"fraction": 0.125,
"adapters_found": {
"BC_FLANK": 25
},
"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."
}