ERR14843205 · Gut microbiome
RAT_1
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 (%) |
|---|---|---|
| Lactobacillus johnsonii | Lactobacillus | 34.1694 |
| Limosilactobacillus reuteri | Limosilactobacillus | 20.4752 |
| Ligilactobacillus murinus | Ligilactobacillus | 12.0179 |
| Pedobacter kyungheensis | Pedobacter | 5.5539 |
| Mucispirillum schaedleri | Mucispirillum | 4.1857 |
| Muribaculum intestinale | Muribaculum | 3.2968 |
| Pedobacter hainanensis | Pedobacter | 2.8399 |
| Lactobacillus psittaci | Lactobacillus | 2.7022 |
| Ligilactobacillus salivarius | Ligilactobacillus | 2.6961 |
| Rhodopirellula rubra | Rhodopirellula | 1.8341 |
| Lactobacillus gasseri | Lactobacillus | 1.4135 |
| Neglectibacter timonensis | Neglectibacter | 1.1425 |
| Pedobacter nototheniae | Pedobacter | 0.9987 |
| Limosilactobacillus oris | Limosilactobacillus | 0.9606 |
| Alistipes dispar | Alistipes | 0.6635 |
| Bacteroides helcogenes | Bacteroides | 0.6085 |
| Lactobacillus taiwanensis | Lactobacillus | 0.6032 |
| Lactobacillus delbrueckii | Lactobacillus | 0.5238 |
| Alistipes onderdonkii | Alistipes | 0.4788 |
| Bacteroides rodentium | Bacteroides | 0.4741 |
| Bacteroides fragilis | Bacteroides | 0.3954 |
| Schaedlerella arabinosiphila | Schaedlerella | 0.3428 |
| Agathobaculum desmolans | Agathobaculum | 0.3220 |
| Lactobacillus rogosae | Lactobacillus | 0.3220 |
| Alistipes putredinis | Alistipes | 0.3118 |
| Bacteroides intestinalis | Bacteroides | 0.2776 |
| Bacteroides uniformis | Bacteroides | 0.2654 |
| Flintibacter butyricus | Flintibacter | 0.1246 |
Saved public metadata
{
"run_accession": "ERR14843205",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993190",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "151938",
"base_count": "174865506",
"fastq_bytes": "151058201",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/005/ERR14843205/ERR14843205.fastq.gz",
"sample_title": "RAT_1",
"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": "f9e7209288167a254bb2f42496b46dc0213501e223c1cf0a7b8d6f62fb009407",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1494.0,
"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": 30000,
"reads_skipped": 20199,
"elapsed_seconds": 2.2358053429999813,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 61,
"fraction": 0.305,
"adapters_found": {
"RAP": 37,
"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."
}