ERR13464080 · Gut microbiome
GUTMCM_minion_v1_9_20240606_invitrogen_I2_bc16
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 (%) |
|---|---|---|
| Limosilactobacillus fermentum | Limosilactobacillus | 24.7936 |
| Faecalibacterium prausnitzii | Faecalibacterium | 17.8150 |
| Roseburia hominis | Roseburia | 12.7612 |
| Roseburia intestinalis | Roseburia | 11.0669 |
| Veillonella parvula | Veillonella | 9.1582 |
| Veillonella rodentium | Veillonella | 5.5045 |
| Limosilactobacillus oris | Limosilactobacillus | 4.9651 |
| Escherichia coli | Escherichia | 3.1368 |
| Veillonella dispar | Veillonella | 2.5365 |
| Limosilactobacillus mucosae | Limosilactobacillus | 1.7531 |
| Lactobacillus delbrueckii | Lactobacillus | 1.2667 |
| Veillonella seminalis | Veillonella | 1.1255 |
| Limosilactobacillus reuteri | Limosilactobacillus | 0.9834 |
| Limosilactobacillus gorillae | Limosilactobacillus | 0.7835 |
| Fusobacterium nucleatum | Fusobacterium | 0.6036 |
| Lactobacillus psittaci | Lactobacillus | 0.3358 |
| Fusobacterium periodonticum | Fusobacterium | 0.2743 |
| Roseburia faecis | Roseburia | 0.2298 |
| Shigella dysenteriae | Shigella | 0.2266 |
| Veillonella infantium | Veillonella | 0.1777 |
| Veillonella rogosae | Veillonella | 0.1770 |
| Shigella sonnei | Shigella | 0.1288 |
| Escherichia fergusonii | Escherichia | 0.1121 |
| Fusobacterium necrophorum | Fusobacterium | 0.0844 |
Saved public metadata
{
"run_accession": "ERR13464080",
"study_accession": "PRJEB59610",
"sample_accession": "SAMEA115904662",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "1359465",
"base_count": "2105816045",
"fastq_bytes": "1724727984",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/080/ERR13464080/ERR13464080.fastq.gz",
"sample_title": "GUTMCM_minion_v1_9_20240606_invitrogen_I2_bc16",
"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": "79cdc1048b9299d477570480059d054a97ed50a2e394a59738a1976f9bcb2898",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1593.0,
"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": 30000,
"reads_skipped": 1344,
"elapsed_seconds": 3.4300746500000088,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 51,
"fraction": 0.255,
"adapters_found": {
"27F": 51
},
"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."
}