ERR14843202 · Gut microbiome
RAT_12
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 | 31.9973 |
| Ligilactobacillus murinus | Ligilactobacillus | 28.2426 |
| Limosilactobacillus reuteri | Limosilactobacillus | 21.6422 |
| Ligilactobacillus salivarius | Ligilactobacillus | 7.2018 |
| Muribaculum intestinale | Muribaculum | 2.6222 |
| Lactobacillus psittaci | Lactobacillus | 1.0963 |
| Lactobacillus gasseri | Lactobacillus | 0.6324 |
| Bacteroides rodentium | Bacteroides | 0.5464 |
| Bacteroides fragilis | Bacteroides | 0.4642 |
| Alistipes dispar | Alistipes | 0.4173 |
| Anaerococcus mediterraneensis | Anaerococcus | 0.3849 |
| Lactobacillus taiwanensis | Lactobacillus | 0.3605 |
| Alistipes onderdonkii | Alistipes | 0.3342 |
| Bacteroides uniformis | Bacteroides | 0.3218 |
| Bacteroides helcogenes | Bacteroides | 0.3190 |
| Limosilactobacillus oris | Limosilactobacillus | 0.3002 |
| Bacteroides caecicola | Bacteroides | 0.2595 |
| Alistipes inops | Alistipes | 0.2331 |
| Alistipes putredinis | Alistipes | 0.2206 |
| Bacteroides stercoris | Bacteroides | 0.2037 |
| Dyadobacter jejuensis | Dyadobacter | 0.1852 |
| Rhodopirellula rubra | Rhodopirellula | 0.1659 |
| Anaerococcus rubeinfantis | Anaerococcus | 0.1523 |
| Bacteroides timonensis | Bacteroides | 0.1474 |
| Ligilactobacillus animalis | Ligilactobacillus | 0.1453 |
| Dyadobacter tibetensis | Dyadobacter | 0.1432 |
| Bacteroides caecimuris | Bacteroides | 0.1395 |
| Lactobacillus hominis | Lactobacillus | 0.1233 |
| Lactobacillus delbrueckii | Lactobacillus | 0.1191 |
| Ligilactobacillus aviarius | Ligilactobacillus | 0.1163 |
| Bacteroides intestinalis | Bacteroides | 0.1099 |
| Anaerococcus pacaensis | Anaerococcus | 0.1027 |
| Bacteroides acidifaciens | Bacteroides | 0.0998 |
| Lactobacillus acetotolerans | Lactobacillus | 0.0973 |
| Ligilactobacillus agilis | Ligilactobacillus | 0.0930 |
| Alistipes megaguti | Alistipes | 0.0905 |
| Lactobacillus rhamnosus | Lactobacillus | 0.0902 |
| Limosilactobacillus mucosae | Limosilactobacillus | 0.0791 |
Saved public metadata
{
"run_accession": "ERR14843202",
"study_accession": "PRJEB88391",
"sample_accession": "SAMEA117993187",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "154183",
"base_count": "232070047",
"fastq_bytes": "182491191",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR148/002/ERR14843202/ERR14843202.fastq.gz",
"sample_title": "RAT_12",
"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": "0d1e254ea7898986d5ec402d02d0b07ea2b0ba75a29d36158241a58fab465c83",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1536.0,
"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": 4606,
"elapsed_seconds": 2.917177412000001,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 59,
"fraction": 0.295,
"adapters_found": {
"BC_FLANK": 46,
"RAP": 11,
"27F": 2
},
"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."
}