SRR15676111 · Gut microbiome
Metagenome of Rattus norvegicus
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 (%) |
|---|---|---|
| Klebsiella pneumoniae | Klebsiella | 36.8702 |
| Enterococcus faecium | Enterococcus | 9.9556 |
| Ligilactobacillus murinus | Ligilactobacillus | 7.5836 |
| Klebsiella michiganensis | Klebsiella | 7.2566 |
| Citrobacter freundii | Citrobacter | 6.5622 |
| Ligilactobacillus salivarius | Ligilactobacillus | 4.9672 |
| Ligilactobacillus animalis | Ligilactobacillus | 2.5335 |
| Enterococcus faecalis | Enterococcus | 2.4511 |
| Morganella morganii | Morganella | 2.1173 |
| Klebsiella aerogenes | Klebsiella | 1.9716 |
| Klebsiella variicola | Klebsiella | 1.5182 |
| Ligilactobacillus aviarius | Ligilactobacillus | 1.4187 |
| Enterococcus avium | Enterococcus | 1.3724 |
| Ligilactobacillus agilis | Ligilactobacillus | 1.0377 |
| Ligilactobacillus saerimneri | Ligilactobacillus | 1.0183 |
| Clostridium baratii | Clostridium | 1.0029 |
| Ligilactobacillus acidipiscis | Ligilactobacillus | 0.9688 |
| Enterococcus hirae | Enterococcus | 0.8741 |
| Citrobacter amalonaticus | Citrobacter | 0.8514 |
| Ligilactobacillus faecis | Ligilactobacillus | 0.7872 |
| Klebsiella oxytoca | Klebsiella | 0.7219 |
| Enterococcus gallinarum | Enterococcus | 0.6436 |
| Clostridium botulinum | Clostridium | 0.6408 |
| Citrobacter youngae | Citrobacter | 0.5810 |
| Clostridium carnis | Clostridium | 0.5711 |
| Citrobacter werkmanii | Citrobacter | 0.5512 |
| Klebsiella quasipneumoniae | Klebsiella | 0.5150 |
| Citrobacter farmeri | Citrobacter | 0.4946 |
| Enterococcus columbae | Enterococcus | 0.4876 |
| Enterococcus casseliflavus | Enterococcus | 0.4654 |
| Klebsiella terrigena | Klebsiella | 0.4447 |
| Citrobacter braakii | Citrobacter | 0.3871 |
| Klebsiella ornithinolytica | Klebsiella | 0.3772 |
Saved public metadata
{
"run_accession": "SRR15676111",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156633",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "132341",
"base_count": "202556258",
"fastq_bytes": "195887356",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/011/SRR15676111/SRR15676111_1.fastq.gz",
"sample_title": "Metagenome of Rattus norvegicus",
"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": "df538d937a42d969fe32392c55cc828e5189ca4873e35b8ef7d084dfe10ff104",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1574.0,
"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": 20000,
"reads_skipped": 12734,
"elapsed_seconds": 1.495742430999826,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 21,
"fraction": 0.105,
"adapters_found": {
"27F": 21
},
"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."
}