SRR15676145 · 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 murinus | Ligilactobacillus | 16.6763 |
| Ligilactobacillus salivarius | Ligilactobacillus | 12.8780 |
| Helicobacter apodemus | Helicobacter | 10.4401 |
| Limosilactobacillus reuteri | Limosilactobacillus | 9.3783 |
| Lactobacillus psittaci | Lactobacillus | 5.3002 |
| Helicobacter pylori | Helicobacter | 4.6596 |
| Ligilactobacillus saerimneri | Ligilactobacillus | 4.2770 |
| Helicobacter canicola | Helicobacter | 4.2019 |
| Lactococcus garvieae | Lactococcus | 3.6890 |
| Helicobacter fennelliae | Helicobacter | 3.3274 |
| Helicobacter apri | Helicobacter | 2.8054 |
| Helicobacter mastomyrinus | Helicobacter | 2.4789 |
| Helicobacter typhlonius | Helicobacter | 2.1130 |
| Lactococcus lactis | Lactococcus | 1.7682 |
| Ligilactobacillus animalis | Ligilactobacillus | 1.7087 |
| Limosilactobacillus oris | Limosilactobacillus | 1.6151 |
| Ligilactobacillus agilis | Ligilactobacillus | 1.4748 |
| Limosilactobacillus fermentum | Limosilactobacillus | 1.2759 |
| Ligilactobacillus acidipiscis | Ligilactobacillus | 1.2234 |
| Helicobacter acinonychis | Helicobacter | 1.1792 |
| Ligilactobacillus faecis | Ligilactobacillus | 1.1348 |
| Ligilactobacillus aviarius | Ligilactobacillus | 1.0676 |
| Lactobacillus delbrueckii | Lactobacillus | 0.9237 |
| Helicobacter macacae | Helicobacter | 0.6568 |
| Helicobacter bilis | Helicobacter | 0.6512 |
| Helicobacter hepaticus | Helicobacter | 0.6039 |
| Lactobacillus rhamnosus | Lactobacillus | 0.5667 |
| Lactococcus formosensis | Lactococcus | 0.5408 |
| Limosilactobacillus mucosae | Limosilactobacillus | 0.4811 |
| Limosilactobacillus antri | Limosilactobacillus | 0.4549 |
| Limosilactobacillus frumenti | Limosilactobacillus | 0.4478 |
Saved public metadata
{
"run_accession": "SRR15676145",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156602",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "161225",
"base_count": "264244210",
"fastq_bytes": "277501707",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/045/SRR15676145/SRR15676145_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": "1006083c43a450443f968a82b8f0fd642326cb1ca4a77770ae8d236f5ea53f01",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1588.0,
"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": 14258,
"elapsed_seconds": 1.497300537000001,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 6,
"fraction": 0.03,
"adapters_found": {
"BC_FLANK": 2,
"27F": 2,
"1492R_rc": 2
},
"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."
}