ERR14843196 · Gut microbiome
RAT_21
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 | 34.9506 |
| Limosilactobacillus reuteri | Limosilactobacillus | 26.0412 |
| Ligilactobacillus murinus | Ligilactobacillus | 20.7522 |
| Ligilactobacillus salivarius | Ligilactobacillus | 3.9644 |
| Muribaculum intestinale | Muribaculum | 2.6361 |
| Lactobacillus psittaci | Lactobacillus | 1.3169 |
| Pedobacter kyungheensis | Pedobacter | 0.8884 |
| Lactobacillus gasseri | Lactobacillus | 0.8514 |
| Alistipes dispar | Alistipes | 0.8482 |
| Bacteroides rodentium | Bacteroides | 0.7884 |
| Bacteroides uniformis | Bacteroides | 0.6158 |
| Alistipes onderdonkii | Alistipes | 0.5045 |
| Bacteroides helcogenes | Bacteroides | 0.4713 |
| Limosilactobacillus oris | Limosilactobacillus | 0.4143 |
| Bacteroides fragilis | Bacteroides | 0.3819 |
| Bacteroides acidifaciens | Bacteroides | 0.3632 |
| Bacteroides caecicola | Bacteroides | 0.3596 |
| Alistipes putredinis | Alistipes | 0.3555 |
| Rhodopirellula rubra | Rhodopirellula | 0.3339 |
| Alistipes inops | Alistipes | 0.3327 |
| Lactobacillus taiwanensis | Lactobacillus | 0.3272 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.3205 |
| Pedobacter hainanensis | Pedobacter | 0.2883 |
| Bacteroides caecimuris | Bacteroides | 0.2047 |
| Bacteroides stercoris | Bacteroides | 0.1954 |
| Dyadobacter tibetensis | Dyadobacter | 0.1651 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.1631 |
| Alistipes finegoldii | Alistipes | 0.1394 |
| Bacteroides timonensis | Bacteroides | 0.1306 |
| Lactobacillus helveticus | Lactobacillus | 0.1299 |
| Lactobacillus hominis | Lactobacillus | 0.1281 |
| Lactobacillus acetotolerans | Lactobacillus | 0.1259 |
| Lactobacillus delbrueckii | Lactobacillus | 0.1193 |
| Alistipes megaguti | Alistipes | 0.1082 |
| Ligilactobacillus agilis | Ligilactobacillus | 0.0972 |
| Ligilactobacillus aviarius | Ligilactobacillus | 0.0933 |
| Lactobacillus rhamnosus | Lactobacillus | 0.0933 |
Saved public metadata
{
"run_accession": "ERR14843196",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993181",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "366442",
"base_count": "548228248",
"fastq_bytes": "435212161",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/096/ERR14843196/ERR14843196.fastq.gz",
"sample_title": "RAT_21",
"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": "bc22b355d41f4607d6e8a6399210222e6d4d610bf9212f345bfae30ce804d467",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1535.0,
"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": 5263,
"elapsed_seconds": 2.79120156700003,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 61,
"fraction": 0.305,
"adapters_found": {
"27F": 7,
"RAP": 17,
"BC_FLANK": 37
},
"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."
}