ERR14843206 · Gut microbiome
RAT_2
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 | 52.4471 |
| Ligilactobacillus murinus | Ligilactobacillus | 17.8449 |
| Limosilactobacillus reuteri | Limosilactobacillus | 9.9148 |
| Muribaculum intestinale | Muribaculum | 4.5559 |
| Ligilactobacillus salivarius | Ligilactobacillus | 2.5149 |
| Lactobacillus psittaci | Lactobacillus | 1.8478 |
| Jeotgalicoccus huakuii | Jeotgalicoccus | 1.3687 |
| Lactobacillus gasseri | Lactobacillus | 1.1822 |
| Lactobacillus taiwanensis | Lactobacillus | 0.7525 |
| Staphylococcus nepalensis | Staphylococcus | 0.7210 |
| Odoribacter laneus | Odoribacter | 0.6462 |
| Odoribacter splanchnicus | Odoribacter | 0.5805 |
| Alistipes dispar | Alistipes | 0.5389 |
| Rhodopirellula rubra | Rhodopirellula | 0.4655 |
| Alistipes onderdonkii | Alistipes | 0.2898 |
| Limosilactobacillus oris | Limosilactobacillus | 0.2800 |
| Lactobacillus hominis | Lactobacillus | 0.2596 |
| Staphylococcus stepanovicii | Staphylococcus | 0.2425 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.2300 |
| Staphylococcus saprophyticus | Staphylococcus | 0.2279 |
| Staphylococcus vitulinus | Staphylococcus | 0.2171 |
| Lactobacillus acetotolerans | Lactobacillus | 0.2140 |
| Staphylococcus aureus | Staphylococcus | 0.2136 |
| Floricoccus tropicus | Floricoccus | 0.2087 |
| Lactobacillus delbrueckii | Lactobacillus | 0.2037 |
| Dyadobacter jejuensis | Dyadobacter | 0.1885 |
| Ligilactobacillus agilis | Ligilactobacillus | 0.1827 |
| Jeotgalicoccus coquinae | Jeotgalicoccus | 0.1795 |
| Alistipes finegoldii | Alistipes | 0.1784 |
| Jeotgalicoccus aerolatus | Jeotgalicoccus | 0.1666 |
| Staphylococcus argensis | Staphylococcus | 0.1658 |
| Staphylococcus sciuri | Staphylococcus | 0.1565 |
| Lactobacillus rhamnosus | Lactobacillus | 0.1506 |
| Alistipes putredinis | Alistipes | 0.1434 |
| Lactobacillus helveticus | Lactobacillus | 0.1427 |
| Alistipes inops | Alistipes | 0.1374 |
| Lactobacillus jensenii | Lactobacillus | 0.1231 |
| Dyadobacter fermentans | Dyadobacter | 0.1169 |
Saved public metadata
{
"run_accession": "ERR14843206",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993191",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "193251",
"base_count": "261567087",
"fastq_bytes": "211912041",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/006/ERR14843206/ERR14843206.fastq.gz",
"sample_title": "RAT_2",
"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": "7c23ab53b05af55b4380936e0a4ea2a6e3f2d7631a5b2a37bd61398aa3161af4",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1529.0,
"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": 10310,
"elapsed_seconds": 2.850237770000035,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 52,
"fraction": 0.26,
"adapters_found": {
"BC_FLANK": 19,
"RAP": 27,
"27F": 6
},
"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."
}