ERR13464074 · Gut microbiome
GUTMCM_minion_v1_9_20240516_zymo_Z3_bc03
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 (%) |
|---|---|---|
| Faecalibacterium prausnitzii | Faecalibacterium | 22.9138 |
| Veillonella parvula | Veillonella | 22.4203 |
| Escherichia coli | Escherichia | 13.4811 |
| Veillonella rodentium | Veillonella | 12.2613 |
| Clostridioides difficile | Clostridioides | 4.2094 |
| Veillonella dispar | Veillonella | 3.8193 |
| Fusobacterium nucleatum | Fusobacterium | 2.7712 |
| Roseburia intestinalis | Roseburia | 2.0573 |
| Roseburia hominis | Roseburia | 1.7664 |
| Veillonella seminalis | Veillonella | 1.4199 |
| Shigella dysenteriae | Shigella | 1.2746 |
| Bacteroides fragilis | Bacteroides | 1.1484 |
| Fusobacterium periodonticum | Fusobacterium | 1.0321 |
| Prevotella intermedia | Prevotella | 0.9899 |
| Veillonella infantium | Veillonella | 0.9708 |
| Bacteroides thetaiotaomicron | Bacteroides | 0.8282 |
| Akkermansia muciniphila | Akkermansia | 0.7898 |
| Veillonella rogosae | Veillonella | 0.7813 |
| Shigella sonnei | Shigella | 0.6007 |
| Escherichia fergusonii | Escherichia | 0.5152 |
| Prevotella corporis | Prevotella | 0.4352 |
| Prevotella nigrescens | Prevotella | 0.4102 |
| Veillonella tobetsuensis | Veillonella | 0.3773 |
| Shigella flexneri | Shigella | 0.3343 |
| Fusobacterium simiae | Fusobacterium | 0.2899 |
| Veillonella atypica | Veillonella | 0.2709 |
| Prevotella jejuni | Prevotella | 0.2694 |
| Bacteroides ovatus | Bacteroides | 0.2677 |
| Akkermansia glycaniphila | Akkermansia | 0.2400 |
| Bacteroides timonensis | Bacteroides | 0.2216 |
| Limosilactobacillus fermentum | Limosilactobacillus | 0.1846 |
| Fusobacterium hwasookii | Fusobacterium | 0.1839 |
| Fusobacterium necrophorum | Fusobacterium | 0.1415 |
| Veillonella denticariosi | Veillonella | 0.1299 |
| Shigella boydii | Shigella | 0.1066 |
| Roseburia faecis | Roseburia | 0.0862 |
Saved public metadata
{
"run_accession": "ERR13464074",
"study_accession": "PRJEB59610",
"sample_accession": "SAMEA115904657",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "436527",
"base_count": "671195782",
"fastq_bytes": "546952858",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/074/ERR13464074/ERR13464074.fastq.gz",
"sample_title": "GUTMCM_minion_v1_9_20240516_zymo_Z3_bc03",
"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": "6a7f240136ec1e3d654807d7de3be6c1d4699f9dfef9fed453cd16899fb48f34",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1575.0,
"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": 5569,
"elapsed_seconds": 5.074337215,
"reads_submitted": 30000,
"reads_after_filter": 30000,
"adapter_scan": {
"sampled": 200,
"matched": 6,
"fraction": 0.03,
"adapters_found": {
"27F": 5,
"BC_FLANK": 1
},
"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."
}