SRR15676118 · Gut microbiome
Metagenome of Peromyscus leucopus
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 | 10.1153 |
| Lactobacillus helveticus | Lactobacillus | 8.8635 |
| Helicobacter hepaticus | Helicobacter | 6.5792 |
| Helicobacter bilis | Helicobacter | 5.8386 |
| Helicobacter fennelliae | Helicobacter | 5.4408 |
| Limosilactobacillus reuteri | Limosilactobacillus | 5.1806 |
| Helicobacter canicola | Helicobacter | 4.6660 |
| Lactobacillus delbrueckii | Lactobacillus | 4.5164 |
| Helicobacter acinonychis | Helicobacter | 4.4710 |
| Helicobacter cholecystus | Helicobacter | 4.3204 |
| Helicobacter pylori | Helicobacter | 4.2712 |
| Helicobacter typhlonius | Helicobacter | 4.1940 |
| Lactobacillus johnsonii | Lactobacillus | 3.6045 |
| Helicobacter apri | Helicobacter | 2.9115 |
| Helicobacter apodemus | Helicobacter | 2.7930 |
| Blautia producta | Blautia | 2.7806 |
| Lactobacillus jensenii | Lactobacillus | 1.9473 |
| Lactobacillus gasseri | Lactobacillus | 1.9463 |
| Helicobacter aurati | Helicobacter | 1.9073 |
| Lactobacillus acetotolerans | Lactobacillus | 1.7591 |
| Blautia faecis | Blautia | 1.5822 |
| Blautia hansenii | Blautia | 1.5678 |
| Helicobacter rodentium | Helicobacter | 1.3675 |
| Lactobacillus amylovorus | Lactobacillus | 0.9518 |
| Helicobacter pametensis | Helicobacter | 0.7403 |
| Helicobacter pullorum | Helicobacter | 0.6864 |
| Limosilactobacillus oris | Limosilactobacillus | 0.6054 |
| Helicobacter cinaedi | Helicobacter | 0.5681 |
| Limosilactobacillus fermentum | Limosilactobacillus | 0.5141 |
| Ruminococcus champanellensis | Ruminococcus | 0.4578 |
| Ruminococcus bromii | Ruminococcus | 0.4552 |
| Helicobacter macacae | Helicobacter | 0.4400 |
| Lactobacillus gallinarum | Lactobacillus | 0.4269 |
| Helicobacter mastomyrinus | Helicobacter | 0.3902 |
| Limosilactobacillus mucosae | Limosilactobacillus | 0.3437 |
| Blautia luti | Blautia | 0.2824 |
| Helicobacter trogontum | Helicobacter | 0.2683 |
| Lactobacillus taiwanensis | Lactobacillus | 0.2452 |
Saved public metadata
{
"run_accession": "SRR15676118",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156626",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "716169",
"base_count": "1074587605",
"fastq_bytes": "1079431114",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/018/SRR15676118/SRR15676118_1.fastq.gz",
"sample_title": "Metagenome of Peromyscus leucopus",
"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": "aa1e16ec8508ebe003b02a60d3b9d62db6797a51fbd60f132adfdeaed5b635ac",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1565.0,
"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": 10655,
"elapsed_seconds": 1.742697901999918,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 8,
"fraction": 0.04,
"adapters_found": {
"27F": 8
},
"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."
}