SRR15676139 · 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 | 16.8653 |
| Helicobacter apodemus | Helicobacter | 13.6025 |
| Ligilactobacillus salivarius | Ligilactobacillus | 13.3303 |
| Helicobacter pylori | Helicobacter | 7.4568 |
| Helicobacter canicola | Helicobacter | 6.3558 |
| Clostridium beijerinckii | Clostridium | 5.5114 |
| Helicobacter fennelliae | Helicobacter | 3.8600 |
| Helicobacter apri | Helicobacter | 3.7261 |
| Ligilactobacillus saerimneri | Ligilactobacillus | 3.3605 |
| Clostridium estertheticum | Clostridium | 2.1932 |
| Helicobacter typhlonius | Helicobacter | 2.1102 |
| Helicobacter mastomyrinus | Helicobacter | 1.9813 |
| Helicobacter acinonychis | Helicobacter | 1.9799 |
| Ligilactobacillus acidipiscis | Ligilactobacillus | 1.8795 |
| Helicobacter macacae | Helicobacter | 1.7158 |
| Clostridium thermosuccinogenes | Clostridium | 1.6895 |
| Ligilactobacillus agilis | Ligilactobacillus | 1.6689 |
| Ligilactobacillus aviarius | Ligilactobacillus | 1.4982 |
| Clostridium botulinum | Clostridium | 1.4406 |
| Clostridium butyricum | Clostridium | 1.4180 |
| Ligilactobacillus faecis | Ligilactobacillus | 1.1928 |
| Clostridium carnis | Clostridium | 1.0496 |
| Clostridium phytofermentans | Clostridium | 0.9200 |
| Helicobacter bilis | Helicobacter | 0.8767 |
| Clostridium sporogenes | Clostridium | 0.8219 |
| Helicobacter cholecystus | Helicobacter | 0.7759 |
| Helicobacter hepaticus | Helicobacter | 0.7195 |
Saved public metadata
{
"run_accession": "SRR15676139",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156607",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "151430",
"base_count": "247108838",
"fastq_bytes": "257037721",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/039/SRR15676139/SRR15676139_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": "9143ff94ac5c0010d9851c1d20ad1fc916a4ceff884567be3cd19d81ab055e65",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1585.0,
"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": 16528,
"elapsed_seconds": 1.2877470410001024,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 3,
"fraction": 0.015,
"adapters_found": {
"27F": 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."
}