SRR18996197 · 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 | 24.3298 |
| Enterobacter roggenkampii | Enterobacter | 16.6817 |
| Serratia marcescens | Serratia | 14.6044 |
| Enterococcus faecium | Enterococcus | 7.3476 |
| Enterococcus columbae | Enterococcus | 3.3505 |
| Enterobacter asburiae | Enterobacter | 3.2139 |
| Enterococcus faecalis | Enterococcus | 2.9675 |
| Lactococcus garvieae | Lactococcus | 2.9674 |
| Serratia rubidaea | Serratia | 2.7861 |
| Enterococcus gallinarum | Enterococcus | 2.5534 |
| Pantoea agglomerans | Pantoea | 2.4765 |
| Enterobacter ludwigii | Enterobacter | 2.0552 |
| Pantoea stewartii | Pantoea | 1.8444 |
| Pantoea vagans | Pantoea | 1.8253 |
| Enterobacter kobei | Enterobacter | 1.6416 |
| Enterococcus casseliflavus | Enterococcus | 1.3466 |
| Enterobacter cloacae | Enterobacter | 1.3398 |
| Moellerella wisconsensis | Moellerella | 1.1649 |
| Serratia surfactantfaciens | Serratia | 1.1576 |
| Enterococcus avium | Enterococcus | 0.8000 |
| Lactococcus lactis | Lactococcus | 0.5482 |
| Pantoea cypripedii | Pantoea | 0.5313 |
| Asaia bogorensis | Asaia | 0.4654 |
| Pantoea ananatis | Pantoea | 0.3374 |
| Enterococcus saccharolyticus | Enterococcus | 0.3189 |
| Asaia platycodi | Asaia | 0.2918 |
| Serratia ficaria | Serratia | 0.2264 |
| Staphylococcus aureus | Staphylococcus | 0.2247 |
| Enterobacter bugandensis | Enterobacter | 0.2099 |
| Enterobacter mori | Enterobacter | 0.1838 |
| Lactiplantibacillus plantarum | Lactiplantibacillus | 0.1082 |
| Lacticaseibacillus paracasei | Lacticaseibacillus | 0.0999 |
Saved public metadata
{
"run_accession": "SRR18996197",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615855",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "237131",
"base_count": "344030673",
"fastq_bytes": "310048244",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/097/SRR18996197/SRR18996197_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": "86c73ee3060a0552e31fa4de25e0072b6b7560a1f2f28e428ba0d10683b1eab1",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1477.0,
"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": 7946,
"elapsed_seconds": 2.099533883999996,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 54,
"fraction": 0.27,
"adapters_found": {
"BC_FLANK": 54
},
"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."
}