ERR14843208 · Gut microbiome
RAT_4
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 | 41.3715 |
| Ligilactobacillus murinus | Ligilactobacillus | 35.6637 |
| Ligilactobacillus salivarius | Ligilactobacillus | 5.5531 |
| Limosilactobacillus reuteri | Limosilactobacillus | 4.4109 |
| Muribaculum intestinale | Muribaculum | 3.0698 |
| Lactobacillus psittaci | Lactobacillus | 1.1631 |
| Bacteroides helcogenes | Bacteroides | 1.0217 |
| Pedobacter kyungheensis | Pedobacter | 0.7446 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.6488 |
| Bacteroides caecicola | Bacteroides | 0.6342 |
| Lactobacillus gasseri | Lactobacillus | 0.6128 |
| Odoribacter laneus | Odoribacter | 0.5183 |
| Bacteroides fragilis | Bacteroides | 0.4301 |
| Pedobacter hainanensis | Pedobacter | 0.3834 |
| Alistipes dispar | Alistipes | 0.3126 |
| Lactobacillus taiwanensis | Lactobacillus | 0.2847 |
| Bacteroides stercoris | Bacteroides | 0.2390 |
| Anaerococcus rubeinfantis | Anaerococcus | 0.2351 |
| Rhodopirellula rubra | Rhodopirellula | 0.2231 |
| Odoribacter splanchnicus | Odoribacter | 0.2031 |
| Bacteroides rodentium | Bacteroides | 0.1999 |
| Bacteroides uniformis | Bacteroides | 0.1670 |
| Ligilactobacillus aviarius | Ligilactobacillus | 0.1655 |
| Limosilactobacillus oris | Limosilactobacillus | 0.1526 |
| Lactobacillus hominis | Lactobacillus | 0.1428 |
| Alistipes onderdonkii | Alistipes | 0.1408 |
| Pedobacter nototheniae | Pedobacter | 0.1392 |
| Ligilactobacillus agilis | Ligilactobacillus | 0.1279 |
| Bacteroides caecimuris | Bacteroides | 0.1259 |
| Anaerococcus prevotii | Anaerococcus | 0.1218 |
| Lactobacillus acetotolerans | Lactobacillus | 0.1197 |
| Anaerococcus pacaensis | Anaerococcus | 0.1196 |
| Bacteroides acidifaciens | Bacteroides | 0.1196 |
| Alistipes finegoldii | Alistipes | 0.1113 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.1093 |
| Lactobacillus rhamnosus | Lactobacillus | 0.1077 |
| Bacteroides intestinalis | Bacteroides | 0.1059 |
Saved public metadata
{
"run_accession": "ERR14843208",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993193",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "434163",
"base_count": "638477387",
"fastq_bytes": "497232667",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/008/ERR14843208/ERR14843208.fastq.gz",
"sample_title": "RAT_4",
"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": "9b1228b87b0faf4ef4687b66e2c46dece692eccb7aa30a487a1632ea9efa386d",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1531.0,
"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": 5628,
"elapsed_seconds": 2.8497280789999877,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 60,
"fraction": 0.3,
"adapters_found": {
"RAP": 16,
"BC_FLANK": 40,
"27F": 4
},
"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."
}