ERR14843194 · Gut microbiome
RAT_19
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 | 38.0468 |
| Ligilactobacillus murinus | Ligilactobacillus | 19.2701 |
| Limosilactobacillus reuteri | Limosilactobacillus | 15.8289 |
| Mucispirillum schaedleri | Mucispirillum | 4.2328 |
| Ligilactobacillus salivarius | Ligilactobacillus | 3.6659 |
| Muribaculum intestinale | Muribaculum | 2.2789 |
| Pedobacter kyungheensis | Pedobacter | 2.1868 |
| Odoribacter laneus | Odoribacter | 2.0331 |
| Lactobacillus psittaci | Lactobacillus | 1.6612 |
| Bacteroides rodentium | Bacteroides | 1.1488 |
| Bacteroides uniformis | Bacteroides | 0.8448 |
| Lactobacillus gasseri | Lactobacillus | 0.7785 |
| Pedobacter hainanensis | Pedobacter | 0.6782 |
| Rhodopirellula rubra | Rhodopirellula | 0.5137 |
| Odoribacter splanchnicus | Odoribacter | 0.4900 |
| Bacteroides acidifaciens | Bacteroides | 0.4883 |
| Intestinimonas butyriciproducens | Intestinimonas | 0.4822 |
| Alistipes dispar | Alistipes | 0.4482 |
| Lactobacillus taiwanensis | Lactobacillus | 0.4159 |
| Limosilactobacillus oris | Limosilactobacillus | 0.3683 |
| Alistipes onderdonkii | Alistipes | 0.3678 |
| Bacteroides intestinalis | Bacteroides | 0.3663 |
| Bacteroides fragilis | Bacteroides | 0.3611 |
| Bacteroides stercoris | Bacteroides | 0.2965 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.2533 |
| Bacteroides timonensis | Bacteroides | 0.2514 |
| Bacteroides helcogenes | Bacteroides | 0.2451 |
| Anaerotruncus rubiinfantis | Anaerotruncus | 0.2435 |
| Bacteroides caecimuris | Bacteroides | 0.2422 |
| Pedobacter nototheniae | Pedobacter | 0.1835 |
| Lactobacillus delbrueckii | Lactobacillus | 0.1751 |
| Alistipes inops | Alistipes | 0.1705 |
| Lactobacillus acetotolerans | Lactobacillus | 0.1656 |
| Pedobacter roseus | Pedobacter | 0.1611 |
| Ligilactobacillus agilis | Ligilactobacillus | 0.1510 |
| Lactobacillus hominis | Lactobacillus | 0.1502 |
| Alistipes putredinis | Alistipes | 0.1387 |
| Bacteroides caecicola | Bacteroides | 0.1077 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.1077 |
Saved public metadata
{
"run_accession": "ERR14843194",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993179",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "358371",
"base_count": "474530078",
"fastq_bytes": "388570781",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/094/ERR14843194/ERR14843194.fastq.gz",
"sample_title": "RAT_19",
"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": "3eacf9c518568c2d779bf2f0fe5e0e1073c13bf2a8f48b19ce94a6e413ffeb4a",
"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": 9340,
"elapsed_seconds": 2.859890081000003,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 56,
"fraction": 0.28,
"adapters_found": {
"RAP": 29,
"BC_FLANK": 21,
"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."
}