ERR14843204 · Gut microbiome
RAT_14
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 | 48.8470 |
| Limosilactobacillus reuteri | Limosilactobacillus | 18.8632 |
| Ligilactobacillus murinus | Ligilactobacillus | 16.3388 |
| Ligilactobacillus salivarius | Ligilactobacillus | 2.8717 |
| Muribaculum intestinale | Muribaculum | 2.3700 |
| Lactobacillus psittaci | Lactobacillus | 1.4723 |
| Odoribacter laneus | Odoribacter | 1.2323 |
| Lactobacillus gasseri | Lactobacillus | 0.6438 |
| Alistipes dispar | Alistipes | 0.6424 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.5662 |
| Odoribacter splanchnicus | Odoribacter | 0.5498 |
| Bacteroides rodentium | Bacteroides | 0.5011 |
| Bacteroides uniformis | Bacteroides | 0.4572 |
| Bacteroides acidifaciens | Bacteroides | 0.4061 |
| Bacteroides helcogenes | Bacteroides | 0.3990 |
| Lactobacillus taiwanensis | Lactobacillus | 0.3932 |
| Alistipes onderdonkii | Alistipes | 0.3485 |
| Bacteroides fragilis | Bacteroides | 0.3177 |
| Limosilactobacillus oris | Limosilactobacillus | 0.3101 |
| Bacteroides caecicola | Bacteroides | 0.2819 |
| Alistipes putredinis | Alistipes | 0.2016 |
| Bacteroides stercoris | Bacteroides | 0.1850 |
| Alistipes inops | Alistipes | 0.1727 |
| Dyadobacter tibetensis | Dyadobacter | 0.1649 |
| Anaerococcus rubeinfantis | Anaerococcus | 0.1595 |
| Bacteroides timonensis | Bacteroides | 0.1486 |
| Lactobacillus acetotolerans | Lactobacillus | 0.1448 |
| Lactobacillus hominis | Lactobacillus | 0.1358 |
| Lactobacillus rhamnosus | Lactobacillus | 0.1330 |
| Lactobacillus delbrueckii | Lactobacillus | 0.1261 |
| Bacteroides caecimuris | Bacteroides | 0.1226 |
| Anaerococcus prevotii | Anaerococcus | 0.1222 |
| Anaerococcus pacaensis | Anaerococcus | 0.1021 |
| Alistipes finegoldii | Alistipes | 0.0990 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.0987 |
| Rhodopirellula rubra | Rhodopirellula | 0.0707 |
Saved public metadata
{
"run_accession": "ERR14843204",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993189",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "230003",
"base_count": "352514738",
"fastq_bytes": "275981829",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/004/ERR14843204/ERR14843204.fastq.gz",
"sample_title": "RAT_14",
"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": "97bc4ab16e8c252078c1c78a511c1ba934c5f3f091c45f72c2409231fdaaf4b8",
"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": 4444,
"elapsed_seconds": 3.143514581999966,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 46,
"fraction": 0.23,
"adapters_found": {
"RAP": 13,
"BC_FLANK": 25,
"27F": 8
},
"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."
}