SRR15676096 · Gut microbiome
Metagenome of Microtus pennsylvanicus
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 (%) |
|---|---|---|
| Lactobacillus psittaci | Lactobacillus | 24.2779 |
| Lactobacillus johnsonii | Lactobacillus | 12.4623 |
| Ligilactobacillus murinus | Ligilactobacillus | 8.9481 |
| Ligilactobacillus salivarius | Ligilactobacillus | 6.6936 |
| Lactobacillus jensenii | Lactobacillus | 4.6618 |
| Lactobacillus delbrueckii | Lactobacillus | 3.8389 |
| Malacoplasma penetrans | Malacoplasma | 3.6270 |
| Lactobacillus helveticus | Lactobacillus | 2.9068 |
| Lactobacillus gasseri | Lactobacillus | 2.7688 |
| Ligilactobacillus animalis | Ligilactobacillus | 2.6794 |
| Malacoplasma iowae | Malacoplasma | 2.6300 |
| Helicobacter hepaticus | Helicobacter | 2.4368 |
| Christensenella minuta | Christensenella | 2.4323 |
| Muribaculum intestinale | Muribaculum | 1.7781 |
| Ligilactobacillus aviarius | Ligilactobacillus | 1.6879 |
| Staphylococcus aureus | Staphylococcus | 1.5695 |
| Helicobacter fennelliae | Helicobacter | 1.4428 |
| Helicobacter typhlonius | Helicobacter | 1.3618 |
| Ligilactobacillus saerimneri | Ligilactobacillus | 1.3097 |
| Helicobacter apri | Helicobacter | 1.0810 |
| Ligilactobacillus agilis | Ligilactobacillus | 1.0445 |
| Ligilactobacillus faecis | Ligilactobacillus | 0.9666 |
| Christensenella timonensis | Christensenella | 0.8536 |
| Christensenella massiliensis | Christensenella | 0.8184 |
| Ligilactobacillus acidipiscis | Ligilactobacillus | 0.8005 |
| Helicobacter acinonychis | Helicobacter | 0.7113 |
| Helicobacter pylori | Helicobacter | 0.7002 |
| Malacoplasma muris | Malacoplasma | 0.5875 |
| Helicobacter canicola | Helicobacter | 0.5305 |
| Lactobacillus acetotolerans | Lactobacillus | 0.5153 |
| Helicobacter apodemus | Helicobacter | 0.4521 |
| Helicobacter cholecystus | Helicobacter | 0.4115 |
| Staphylococcus pseudintermedius | Staphylococcus | 0.3779 |
| Helicobacter bilis | Helicobacter | 0.3471 |
| Lactobacillus hominis | Lactobacillus | 0.2886 |
Saved public metadata
{
"run_accession": "SRR15676096",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156646",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "193805",
"base_count": "300421142",
"fastq_bytes": "302941872",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/096/SRR15676096/SRR15676096_1.fastq.gz",
"sample_title": "Metagenome of Microtus pennsylvanicus",
"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": "b6ddffbc904b8f6c7186b94ce85b87936897432c0289e969409247e31e65d7b1",
"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": 11770,
"elapsed_seconds": 3.415866833999985,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 9,
"fraction": 0.045,
"adapters_found": {
"27F": 9
},
"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."
}