ERR14843193 · Gut microbiome
RAT_18
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 (%) |
|---|---|---|
| Limosilactobacillus reuteri | Limosilactobacillus | 31.4285 |
| Lactobacillus johnsonii | Lactobacillus | 29.4758 |
| Ligilactobacillus murinus | Ligilactobacillus | 15.6649 |
| Muribaculum intestinale | Muribaculum | 4.9098 |
| Ligilactobacillus salivarius | Ligilactobacillus | 2.7017 |
| Pedobacter kyungheensis | Pedobacter | 1.5619 |
| Lactobacillus psittaci | Lactobacillus | 1.2492 |
| Bacteroides rodentium | Bacteroides | 1.2336 |
| Bacteroides uniformis | Bacteroides | 1.0021 |
| Bacteroides helcogenes | Bacteroides | 0.9701 |
| Odoribacter laneus | Odoribacter | 0.8174 |
| Pedobacter hainanensis | Pedobacter | 0.7393 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.6705 |
| Lactobacillus gasseri | Lactobacillus | 0.6191 |
| Bacteroides caecicola | Bacteroides | 0.5686 |
| Alistipes dispar | Alistipes | 0.5080 |
| Rhodopirellula rubra | Rhodopirellula | 0.4999 |
| Limosilactobacillus oris | Limosilactobacillus | 0.4927 |
| Bacteroides acidifaciens | Bacteroides | 0.4735 |
| Bacteroides fragilis | Bacteroides | 0.4652 |
| Bacteroides intestinalis | Bacteroides | 0.3596 |
| Lactobacillus taiwanensis | Lactobacillus | 0.3525 |
| Alistipes onderdonkii | Alistipes | 0.3153 |
| Odoribacter splanchnicus | Odoribacter | 0.3151 |
| Anaerococcus rubeinfantis | Anaerococcus | 0.3098 |
| Dyadobacter tibetensis | Dyadobacter | 0.2771 |
| Bacteroides timonensis | Bacteroides | 0.2449 |
| Marvinbryantia formatexigens | Marvinbryantia | 0.2363 |
| Pedobacter nototheniae | Pedobacter | 0.2307 |
| Bacteroides stercoris | Bacteroides | 0.2243 |
| Bacteroides caecimuris | Bacteroides | 0.1988 |
| Alistipes putredinis | Alistipes | 0.1834 |
| Anaerococcus prevotii | Anaerococcus | 0.1718 |
| Intestinimonas butyriciproducens | Intestinimonas | 0.1674 |
| Anaerococcus pacaensis | Anaerococcus | 0.1280 |
| Alistipes inops | Alistipes | 0.1280 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.1050 |
Saved public metadata
{
"run_accession": "ERR14843193",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993178",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "294331",
"base_count": "392778227",
"fastq_bytes": "323649792",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/093/ERR14843193/ERR14843193.fastq.gz",
"sample_title": "RAT_18",
"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": "42071fa256cef91ae72cd4475810e25fb4efc0ba23cd6fe0c08508bf32ba4032",
"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": 9540,
"elapsed_seconds": 2.486459787000001,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 43,
"fraction": 0.215,
"adapters_found": {
"RAP": 19,
"27F": 6,
"BC_FLANK": 18
},
"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."
}