ERR14843201 · Gut microbiome
RAT_24
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 | 48.8803 |
| Ligilactobacillus murinus | Ligilactobacillus | 24.0968 |
| Limosilactobacillus reuteri | Limosilactobacillus | 14.4352 |
| Ligilactobacillus salivarius | Ligilactobacillus | 2.6990 |
| Muribaculum intestinale | Muribaculum | 1.6807 |
| Odoribacter laneus | Odoribacter | 1.3594 |
| Lactobacillus psittaci | Lactobacillus | 1.3584 |
| Lactobacillus gasseri | Lactobacillus | 0.6293 |
| Lactobacillus taiwanensis | Lactobacillus | 0.5410 |
| Odoribacter splanchnicus | Odoribacter | 0.5108 |
| Alistipes dispar | Alistipes | 0.4978 |
| Rhodopirellula rubra | Rhodopirellula | 0.4870 |
| Alistipes onderdonkii | Alistipes | 0.4361 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.3420 |
| Limosilactobacillus oris | Limosilactobacillus | 0.2501 |
| Bacteroides helcogenes | Bacteroides | 0.2241 |
| Alistipes putredinis | Alistipes | 0.2064 |
| Bacteroides fragilis | Bacteroides | 0.1857 |
| Anaerococcus rubeinfantis | Anaerococcus | 0.1579 |
| Lactobacillus acetotolerans | Lactobacillus | 0.1508 |
| Lactobacillus delbrueckii | Lactobacillus | 0.1454 |
| Lactobacillus hominis | Lactobacillus | 0.1386 |
| Alistipes inops | Alistipes | 0.1379 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.1347 |
| Ligilactobacillus aviarius | Ligilactobacillus | 0.1126 |
| Alistipes megaguti | Alistipes | 0.1052 |
| Lactobacillus jensenii | Lactobacillus | 0.0967 |
Saved public metadata
{
"run_accession": "ERR14843201",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993186",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "220975",
"base_count": "307465275",
"fastq_bytes": "239735512",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/001/ERR14843201/ERR14843201.fastq.gz",
"sample_title": "RAT_24",
"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": "66b008b8b4e119213383e42d618b5a19cf1d39c07ccc953811dc7c07b99c706a",
"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": 6651,
"elapsed_seconds": 2.624197957999968,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 45,
"fraction": 0.225,
"adapters_found": {
"RAP": 19,
"BC_FLANK": 21,
"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."
}