SRR15676146 · 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 (%) |
|---|---|---|
| Ligilactobacillus salivarius | Ligilactobacillus | 15.5421 |
| Ligilactobacillus murinus | Ligilactobacillus | 12.9819 |
| Helicobacter apodemus | Helicobacter | 10.7785 |
| Helicobacter pylori | Helicobacter | 6.2698 |
| Helicobacter canicola | Helicobacter | 5.9718 |
| Helicobacter fennelliae | Helicobacter | 4.5370 |
| Helicobacter apri | Helicobacter | 4.0965 |
| Ligilactobacillus saerimneri | Ligilactobacillus | 3.8186 |
| Helicobacter mastomyrinus | Helicobacter | 3.7972 |
| Ligilactobacillus animalis | Ligilactobacillus | 3.4282 |
| Helicobacter typhlonius | Helicobacter | 3.4172 |
| Bacteroides thetaiotaomicron | Bacteroides | 2.2697 |
| Bacteroides uniformis | Bacteroides | 1.9902 |
| Bacteroides fragilis | Bacteroides | 1.7954 |
| Helicobacter hepaticus | Helicobacter | 1.6984 |
| Helicobacter macacae | Helicobacter | 1.4697 |
| Ligilactobacillus agilis | Ligilactobacillus | 1.4306 |
| Ligilactobacillus acidipiscis | Ligilactobacillus | 1.3980 |
| Bacteroides ovatus | Bacteroides | 1.3724 |
| Helicobacter acinonychis | Helicobacter | 1.2059 |
| Streptococcus salivarius | Streptococcus | 1.1515 |
| Streptococcus gordonii | Streptococcus | 1.0840 |
| Bacteroides cellulosilyticus | Bacteroides | 0.9841 |
| Bacteroides timonensis | Bacteroides | 0.9756 |
| Streptococcus anginosus | Streptococcus | 0.8867 |
| Ligilactobacillus aviarius | Ligilactobacillus | 0.8642 |
| Ligilactobacillus faecis | Ligilactobacillus | 0.8211 |
| Streptococcus downei | Streptococcus | 0.7607 |
| Bacteroides caecimuris | Bacteroides | 0.7251 |
| Helicobacter cholecystus | Helicobacter | 0.6986 |
| Helicobacter bilis | Helicobacter | 0.6627 |
| Bacteroides helcogenes | Bacteroides | 0.4242 |
| Helicobacter pametensis | Helicobacter | 0.3664 |
| Bacteroides rodentium | Bacteroides | 0.3258 |
Saved public metadata
{
"run_accession": "SRR15676146",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156601",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "139118",
"base_count": "228702223",
"fastq_bytes": "239810330",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/046/SRR15676146/SRR15676146_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": "c89232561c98197d09dba9ab94532957f7dbbbecad48108750182d67f57133e2",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1590.0,
"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": 12842,
"elapsed_seconds": 1.3964976909999223,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 4,
"fraction": 0.02,
"adapters_found": {
"BC_FLANK": 3,
"27F": 1
},
"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."
}