SRR15676112 · Gut microbiome
Metagenome of Rattus norvegicus
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 | 24.8726 |
| Limosilactobacillus reuteri | Limosilactobacillus | 14.2443 |
| Lactobacillus helveticus | Lactobacillus | 11.1792 |
| Lactobacillus johnsonii | Lactobacillus | 7.4219 |
| Ruminococcus champanellensis | Ruminococcus | 4.3752 |
| Lactobacillus delbrueckii | Lactobacillus | 4.0828 |
| Blautia producta | Blautia | 3.6424 |
| Blautia hansenii | Blautia | 2.1284 |
| Lactobacillus gasseri | Lactobacillus | 1.9245 |
| Phascolarctobacterium faecium | Phascolarctobacterium | 1.8503 |
| Negativibacillus massiliensis | Negativibacillus | 1.7821 |
| Limosilactobacillus mucosae | Limosilactobacillus | 1.5409 |
| Helicobacter apodemus | Helicobacter | 1.4707 |
| Blautia faecis | Blautia | 1.3920 |
| Limosilactobacillus frumenti | Limosilactobacillus | 1.3764 |
| Lactobacillus jensenii | Lactobacillus | 1.2391 |
| Limosilactobacillus fermentum | Limosilactobacillus | 1.0934 |
| Helicobacter fennelliae | Helicobacter | 1.0828 |
| Limosilactobacillus vaginalis | Limosilactobacillus | 1.0528 |
| Limosilactobacillus oris | Limosilactobacillus | 1.0485 |
| Helicobacter typhlonius | Helicobacter | 1.0448 |
| Ruminococcus callidus | Ruminococcus | 1.0409 |
| Helicobacter apri | Helicobacter | 0.9420 |
| Lactobacillus acetotolerans | Lactobacillus | 0.9165 |
| Ruminococcus flavefaciens | Ruminococcus | 0.9150 |
| Ruminococcus bromii | Ruminococcus | 0.9001 |
| Limosilactobacillus antri | Limosilactobacillus | 0.8295 |
| Phascolarctobacterium succinatutens | Phascolarctobacterium | 0.7549 |
| Lactobacillus amylovorus | Lactobacillus | 0.6946 |
| Lactobacillus gallinarum | Lactobacillus | 0.6706 |
| Helicobacter hepaticus | Helicobacter | 0.6305 |
| Helicobacter canicola | Helicobacter | 0.5464 |
| Helicobacter pylori | Helicobacter | 0.4814 |
| Helicobacter acinonychis | Helicobacter | 0.4492 |
| Blautia luti | Blautia | 0.3833 |
Saved public metadata
{
"run_accession": "SRR15676112",
"study_accession": "PRJNA759117",
"sample_accession": "SAMN21156632",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "137044",
"base_count": "207928286",
"fastq_bytes": "210334354",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR156/012/SRR15676112/SRR15676112_1.fastq.gz",
"sample_title": "Metagenome of Rattus norvegicus",
"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": "de8d44a78e3e094947e43041100ff6fb5180ba03b7bacb5b72b70fceef171a11",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1568.0,
"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": 13315,
"elapsed_seconds": 3.843609671999957,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 17,
"fraction": 0.085,
"adapters_found": {
"27F": 17
},
"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."
}