ERR14843195 · Gut microbiome
RAT_20
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 | 44.3935 |
| Limosilactobacillus reuteri | Limosilactobacillus | 22.0717 |
| Mucispirillum schaedleri | Mucispirillum | 7.5120 |
| Ligilactobacillus murinus | Ligilactobacillus | 4.8077 |
| Pseudocoprococcus catus | Pseudocoprococcus | 2.0751 |
| Muribaculum intestinale | Muribaculum | 1.9260 |
| Odoribacter laneus | Odoribacter | 1.8741 |
| Lactobacillus psittaci | Lactobacillus | 1.6558 |
| Intestinimonas butyriciproducens | Intestinimonas | 1.4485 |
| Anaerotruncus rubiinfantis | Anaerotruncus | 1.1251 |
| Neglectibacter timonensis | Neglectibacter | 1.1049 |
| Ligilactobacillus salivarius | Ligilactobacillus | 1.0388 |
| Lactobacillus gasseri | Lactobacillus | 0.8107 |
| Marvinbryantia formatexigens | Marvinbryantia | 0.7815 |
| Odoribacter splanchnicus | Odoribacter | 0.7130 |
| Schaedlerella arabinosiphila | Schaedlerella | 0.5996 |
| Lactobacillus taiwanensis | Lactobacillus | 0.5521 |
| Alistipes dispar | Alistipes | 0.5285 |
| Alistipes onderdonkii | Alistipes | 0.4727 |
| Rhodopirellula rubra | Rhodopirellula | 0.4678 |
| Limosilactobacillus oris | Limosilactobacillus | 0.4178 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.3840 |
| Bacteroides helcogenes | Bacteroides | 0.3244 |
| Bacteroides uniformis | Bacteroides | 0.3133 |
| Bacteroides rodentium | Bacteroides | 0.3065 |
| Anaerotruncus colihominis | Anaerotruncus | 0.2964 |
| Alistipes putredinis | Alistipes | 0.2384 |
| Bacteroides stercoris | Bacteroides | 0.2358 |
| Lactobacillus helveticus | Lactobacillus | 0.2343 |
| Lactobacillus delbrueckii | Lactobacillus | 0.2252 |
| Lactobacillus rhamnosus | Lactobacillus | 0.2188 |
| Alistipes inops | Alistipes | 0.1886 |
| Lactobacillus hominis | Lactobacillus | 0.1725 |
| Bacteroides fragilis | Bacteroides | 0.1684 |
| Bacteroides caecicola | Bacteroides | 0.1615 |
| Lactobacillus acetotolerans | Lactobacillus | 0.1549 |
Saved public metadata
{
"run_accession": "ERR14843195",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993180",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "211550",
"base_count": "299564053",
"fastq_bytes": "254331298",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/095/ERR14843195/ERR14843195.fastq.gz",
"sample_title": "RAT_20",
"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": "ebc75fd2e3cb39b837ddf69237abf1c924292dc77a21674a22aefc1c25874bb4",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1523.0,
"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": 15002,
"elapsed_seconds": 2.4298018920000004,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 55,
"fraction": 0.275,
"adapters_found": {
"RAP": 23,
"BC_FLANK": 25,
"27F": 7
},
"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."
}