SRR18996201 · Gut microbiome
gut metagenome
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 (%) |
|---|---|---|
| Serratia marcescens | Serratia | 13.8100 |
| Enterobacter hormaechei | Enterobacter | 11.0812 |
| Gibbsiella quercinecans | Gibbsiella | 10.6807 |
| Serratia rubidaea | Serratia | 9.7162 |
| Erwinia billingiae | Erwinia | 7.8881 |
| Erwinia amylovora | Erwinia | 4.6201 |
| Enterobacter roggenkampii | Enterobacter | 4.0114 |
| Enterobacter ludwigii | Enterobacter | 3.7182 |
| Erwinia tracheiphila | Erwinia | 3.6642 |
| Pantoea agglomerans | Pantoea | 3.5806 |
| Pantoea vagans | Pantoea | 3.3544 |
| Pantoea stewartii | Pantoea | 2.7067 |
| Lonsdalea britannica | Lonsdalea | 2.3754 |
| Erwinia pyrifoliae | Erwinia | 1.9729 |
| Enterococcus faecium | Enterococcus | 1.9058 |
| Lonsdalea quercina | Lonsdalea | 1.8871 |
| Enterobacter kobei | Enterobacter | 1.8292 |
| Enterobacter cloacae | Enterobacter | 1.4848 |
| Pantoea cypripedii | Pantoea | 1.3457 |
| Gibbsiella dentisursi | Gibbsiella | 1.2111 |
| Rickettsia bellii | Rickettsia | 1.1494 |
| Lonsdalea populi | Lonsdalea | 1.0190 |
| Serratia surfactantfaciens | Serratia | 0.9591 |
| Erwinia tasmaniensis | Erwinia | 0.8623 |
| Enterobacter asburiae | Enterobacter | 0.4751 |
| Pantoea ananatis | Pantoea | 0.4194 |
| Polynucleobacter difficilis | Polynucleobacter | 0.4167 |
| Enterococcus columbae | Enterococcus | 0.4126 |
| Leuconostoc mesenteroides | Leuconostoc | 0.4060 |
| Rickettsia honei | Rickettsia | 0.3143 |
| Erwinia persicina | Erwinia | 0.2840 |
| Pantoea dispersa | Pantoea | 0.2460 |
| Fictibacillus phosphorivorans | Fictibacillus | 0.1923 |
Saved public metadata
{
"run_accession": "SRR18996201",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615851",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "156721",
"base_count": "230972465",
"fastq_bytes": "207546522",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/001/SRR18996201/SRR18996201_1.fastq.gz",
"sample_title": "gut metagenome",
"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": "6223f7747f886dcd1d5608dcdf406c0298911e89515abfe34441747a37d2c7c6",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1480.0,
"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": 10508,
"elapsed_seconds": 1.8818039690000035,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 63,
"fraction": 0.315,
"adapters_found": {
"BC_FLANK": 61,
"27F": 2
},
"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."
}