ERR14843189 · Gut microbiome
RAT_15
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 | 56.1676 |
| Limosilactobacillus reuteri | Limosilactobacillus | 21.2962 |
| Muribaculum intestinale | Muribaculum | 5.2870 |
| Ligilactobacillus murinus | Ligilactobacillus | 5.0437 |
| Lactobacillus psittaci | Lactobacillus | 1.7792 |
| Ligilactobacillus salivarius | Ligilactobacillus | 1.4314 |
| Rhodopirellula rubra | Rhodopirellula | 0.8586 |
| Lactobacillus gasseri | Lactobacillus | 0.8275 |
| Odoribacter laneus | Odoribacter | 0.7408 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.7274 |
| Bacteroides fragilis | Bacteroides | 0.5712 |
| Lactobacillus taiwanensis | Lactobacillus | 0.3688 |
| Alistipes dispar | Alistipes | 0.3634 |
| Limosilactobacillus oris | Limosilactobacillus | 0.3562 |
| Anaerococcus rubeinfantis | Anaerococcus | 0.3463 |
| Bacteroides rodentium | Bacteroides | 0.3447 |
| Odoribacter splanchnicus | Odoribacter | 0.3028 |
| Bacteroides caecicola | Bacteroides | 0.2446 |
| Bacteroides uniformis | Bacteroides | 0.2395 |
| Bacteroides helcogenes | Bacteroides | 0.2378 |
| Alistipes putredinis | Alistipes | 0.2001 |
| Dyadobacter tibetensis | Dyadobacter | 0.1974 |
| Lactobacillus hominis | Lactobacillus | 0.1961 |
| Dyadobacter jejuensis | Dyadobacter | 0.1831 |
| Alistipes inops | Alistipes | 0.1770 |
| Lactobacillus acetotolerans | Lactobacillus | 0.1726 |
| Bacteroides stercoris | Bacteroides | 0.1700 |
| Alistipes onderdonkii | Alistipes | 0.1680 |
| Anaerococcus pacaensis | Anaerococcus | 0.1677 |
| Anaerococcus prevotii | Anaerococcus | 0.1610 |
| Bacteroides acidifaciens | Bacteroides | 0.1603 |
| Lactobacillus delbrueckii | Lactobacillus | 0.1502 |
| Bacteroides timonensis | Bacteroides | 0.1265 |
| Lactobacillus rhamnosus | Lactobacillus | 0.1258 |
| Lactobacillus jensenii | Lactobacillus | 0.1096 |
Saved public metadata
{
"run_accession": "ERR14843189",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993174",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "172021",
"base_count": "234341674",
"fastq_bytes": "184888223",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/089/ERR14843189/ERR14843189.fastq.gz",
"sample_title": "RAT_15",
"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": "f975cc07dd24e545b06e7c502881b607ea1ec9d1e4ed4a7c9a6302e0c16ec8b3",
"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": 8450,
"elapsed_seconds": 2.5200590400000067,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 50,
"fraction": 0.25,
"adapters_found": {
"RAP": 12,
"BC_FLANK": 33,
"27F": 5
},
"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."
}