SRR18996191 · 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 (%) |
|---|---|---|
| Izhakiella capsodis | Izhakiella | 24.6413 |
| Izhakiella australiensis | Izhakiella | 12.1433 |
| Pantoea agglomerans | Pantoea | 10.7114 |
| Pantoea stewartii | Pantoea | 8.5387 |
| Vespertiliibacter pulmonis | Vespertiliibacter | 7.0601 |
| Pantoea vagans | Pantoea | 6.3098 |
| Apilactobacillus kunkeei | Apilactobacillus | 3.5820 |
| Enterococcus faecium | Enterococcus | 3.3805 |
| Rickettsia bellii | Rickettsia | 3.3392 |
| Rahnella aquatilis | Rahnella | 2.7322 |
| Pantoea cypripedii | Pantoea | 1.9835 |
| Pantoea ananatis | Pantoea | 1.8350 |
| Pseudomonas aeruginosa | Pseudomonas | 1.3405 |
| Macrococcus canis | Macrococcus | 1.2411 |
| Enterococcus columbae | Enterococcus | 1.1995 |
| Pseudomonas fragi | Pseudomonas | 0.9152 |
| Pseudomonas veronii | Pseudomonas | 0.9055 |
| Macrococcus brunensis | Macrococcus | 0.6883 |
| Macrococcus caseolyticus | Macrococcus | 0.6381 |
| Proteus mirabilis | Proteus | 0.6055 |
| Rickettsia parkeri | Rickettsia | 0.5912 |
| Apilactobacillus ozensis | Apilactobacillus | 0.5820 |
| Pseudomonas azotoformans | Pseudomonas | 0.5725 |
| Rickettsia honei | Rickettsia | 0.5723 |
| Pseudomonas monteilii | Pseudomonas | 0.5523 |
| Pseudomonas antarctica | Pseudomonas | 0.5003 |
| Methylobacterium goesingense | Methylobacterium | 0.4590 |
| Pantoea alhagi | Pantoea | 0.4272 |
| Pseudomonas chlororaphis | Pseudomonas | 0.3805 |
| Enterococcus faecalis | Enterococcus | 0.3802 |
| Pseudomonas taetrolens | Pseudomonas | 0.3306 |
| Macrococcus bovicus | Macrococcus | 0.3048 |
| Proteus vulgaris | Proteus | 0.2797 |
| Macrococcus hajekii | Macrococcus | 0.2766 |
Saved public metadata
{
"run_accession": "SRR18996191",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615843",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "147288",
"base_count": "217578901",
"fastq_bytes": "200868085",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/091/SRR18996191/SRR18996191_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": "e07d8278045b300ae64ba0cbfa3776944f286a62acf3ddb1476acfdc99aa6466",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1483.0,
"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": 10610,
"elapsed_seconds": 1.736563525000065,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 24,
"fraction": 0.12,
"adapters_found": {
"BC_FLANK": 22,
"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."
}