SRR15676085 · Gut microbiome
Metagenome of Mus musculus
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 (%) |
|---|---|---|
| Helicobacter apodemus | Helicobacter | 14.7102 |
| Helicobacter pylori | Helicobacter | 12.3144 |
| Helicobacter canicola | Helicobacter | 10.7007 |
| Lactococcus garvieae | Lactococcus | 8.1521 |
| Helicobacter apri | Helicobacter | 5.7284 |
| Helicobacter fennelliae | Helicobacter | 5.7028 |
| Muribaculum intestinale | Muribaculum | 4.9728 |
| Lactococcus lactis | Lactococcus | 4.4860 |
| Helicobacter macacae | Helicobacter | 3.1330 |
| Helicobacter typhlonius | Helicobacter | 2.9576 |
| Helicobacter acinonychis | Helicobacter | 2.7775 |
| Helicobacter mastomyrinus | Helicobacter | 2.4584 |
| Lactococcus formosensis | Lactococcus | 2.4534 |
| Bacteroides thetaiotaomicron | Bacteroides | 2.0194 |
| Bacteroides cellulosilyticus | Bacteroides | 1.9772 |
| Ligilactobacillus salivarius | Ligilactobacillus | 1.5965 |
| Helicobacter hepaticus | Helicobacter | 1.5135 |
| Bacteroides fragilis | Bacteroides | 1.4475 |
| Ligilactobacillus murinus | Ligilactobacillus | 1.4218 |
| Bacteroides ovatus | Bacteroides | 1.3122 |
| Helicobacter bilis | Helicobacter | 1.3117 |
| Helicobacter cholecystus | Helicobacter | 1.2032 |
| Helicobacter pullorum | Helicobacter | 0.9989 |
| Bacteroides timonensis | Bacteroides | 0.9651 |
| Bacteroides intestinalis | Bacteroides | 0.9072 |
| Bacteroides caecimuris | Bacteroides | 0.8670 |
| Helicobacter pametensis | Helicobacter | 0.8183 |
| Bacteroides eggerthii | Bacteroides | 0.5632 |
| Bacteroides zoogleoformans | Bacteroides | 0.5300 |
Saved public metadata
{
"run_accession": "SRR15676085",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156597",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "141797",
"base_count": "230336606",
"fastq_bytes": "242477258",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/085/SRR15676085/SRR15676085_1.fastq.gz",
"sample_title": "Metagenome of Mus musculus",
"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": "18ecc2cbff0c3cbefc30e9f875e01852bcf50bd1fd100b0d65ec007979ade3b2",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1577.0,
"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": 15931,
"elapsed_seconds": 1.2499278869999557,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 3,
"fraction": 0.015,
"adapters_found": {
"BC_FLANK": 3
},
"should_trim": false
},
"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."
}