SRR15676115 · Gut microbiome
Metagenome of Peromyscus maniculatus
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 | 24.7041 |
| Lactobacillus helveticus | Lactobacillus | 23.9668 |
| Lactobacillus delbrueckii | Lactobacillus | 9.6086 |
| Lactobacillus johnsonii | Lactobacillus | 6.2846 |
| Lactobacillus jensenii | Lactobacillus | 5.8098 |
| Lactobacillus gasseri | Lactobacillus | 3.6076 |
| Ligilactobacillus murinus | Ligilactobacillus | 3.2859 |
| Lactobacillus acetotolerans | Lactobacillus | 3.0565 |
| Ligilactobacillus salivarius | Ligilactobacillus | 2.8911 |
| Lactobacillus amylovorus | Lactobacillus | 1.7897 |
| Lactobacillus crispatus | Lactobacillus | 1.3826 |
| Ligilactobacillus animalis | Ligilactobacillus | 1.2365 |
| Helicobacter hepaticus | Helicobacter | 1.1603 |
| Helicobacter fennelliae | Helicobacter | 1.0451 |
| Lactobacillus gallinarum | Lactobacillus | 0.9072 |
| Clostridium phytofermentans | Clostridium | 0.8095 |
| Clostridium botulinum | Clostridium | 0.7396 |
| Ligilactobacillus aviarius | Ligilactobacillus | 0.6954 |
| Helicobacter typhlonius | Helicobacter | 0.6763 |
| Helicobacter pylori | Helicobacter | 0.6746 |
| Helicobacter cholecystus | Helicobacter | 0.5882 |
| Helicobacter acinonychis | Helicobacter | 0.5276 |
| Helicobacter apri | Helicobacter | 0.5088 |
| Helicobacter bilis | Helicobacter | 0.4970 |
| Ligilactobacillus saerimneri | Ligilactobacillus | 0.4755 |
| Helicobacter canicola | Helicobacter | 0.4642 |
| Ligilactobacillus agilis | Ligilactobacillus | 0.4387 |
| Clostridium sporogenes | Clostridium | 0.4155 |
| Helicobacter aurati | Helicobacter | 0.3975 |
| Ligilactobacillus acidipiscis | Ligilactobacillus | 0.3956 |
| Lactobacillus taiwanensis | Lactobacillus | 0.3941 |
| Helicobacter apodemus | Helicobacter | 0.2850 |
| Clostridium thermosuccinogenes | Clostridium | 0.2805 |
Saved public metadata
{
"run_accession": "SRR15676115",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156629",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "560511",
"base_count": "840507150",
"fastq_bytes": "830293056",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/015/SRR15676115/SRR15676115_1.fastq.gz",
"sample_title": "Metagenome of Peromyscus maniculatus",
"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": "33a30bd797740cdb16883ab1d6221029655e1d4a6ba6d38cba33378e9653d5c4",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1580.0,
"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": 11053,
"elapsed_seconds": 1.5463531870000224,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 21,
"fraction": 0.105,
"adapters_found": {
"27F": 21
},
"should_trim": true
},
"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."
}