SRR28267215 · Gut microbiome
Metagenome or environmental sample from 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 (%) |
|---|---|---|
| Gallicola barnesae | Gallicola | 40.7815 |
| Arcobacter trophiarum | Arcobacter | 17.0526 |
| Chryseobacterium indologenes | Chryseobacterium | 10.7679 |
| Kocuria rosea | Kocuria | 10.4587 |
| Kocuria varians | Kocuria | 5.5884 |
| Niabella drilacis | Niabella | 1.7701 |
| Ottowia pentelensis | Ottowia | 1.4797 |
| Lysobacter panacisoli | Lysobacter | 1.3415 |
| Niabella yanshanensis | Niabella | 1.0798 |
| Niabella soli | Niabella | 0.9457 |
| Niabella tibetensis | Niabella | 0.7178 |
| Arcobacter butzleri | Arcobacter | 0.7100 |
| Propioniciclava sinopodophylli | Propioniciclava | 0.6743 |
| Neisseria lactamica | Neisseria | 0.6114 |
| Kocuria rhizophila | Kocuria | 0.5279 |
| Neisseria dentiae | Neisseria | 0.4216 |
| Sphingobium xenophagum | Sphingobium | 0.4179 |
| Chryseobacterium balustinum | Chryseobacterium | 0.3457 |
| Paracoccus kondratievae | Paracoccus | 0.3427 |
| Paracoccus aestuarii | Paracoccus | 0.3359 |
| Neisseria polysaccharea | Neisseria | 0.3159 |
| Kocuria indica | Kocuria | 0.3141 |
| Propioniciclava tarda | Propioniciclava | 0.3076 |
| Ottowia shaoguanensis | Ottowia | 0.2875 |
| Terrimonas rubra | Terrimonas | 0.2713 |
| Ottowia beijingensis | Ottowia | 0.2561 |
| Tessaracoccus aquimaris | Tessaracoccus | 0.2482 |
| Tessaracoccus flavus | Tessaracoccus | 0.2434 |
| Kocuria subflava | Kocuria | 0.2358 |
| Sphingobacterium multivorum | Sphingobacterium | 0.2273 |
| Terrimonas aquatica | Terrimonas | 0.2076 |
| Paracoccus versutus | Paracoccus | 0.1791 |
| Spirosoma spitsbergense | Spirosoma | 0.1613 |
| Nocardioides marmoraquaticus | Nocardioides | 0.1539 |
| Luteipulveratus halotolerans | Luteipulveratus | 0.1466 |
| Nocardioides tritolerans | Nocardioides | 0.0733 |
Saved public metadata
{
"run_accession": "SRR28267215",
"study_accession": "PRJNA1082425",
"sample_accession": "SAMN40210565",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "GENOMIC",
"library_selection": "PCR",
"read_count": "111981",
"base_count": "183313609",
"fastq_bytes": "148097171",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR282/015/SRR28267215/SRR28267215_1.fastq.gz",
"sample_title": "Metagenome or environmental sample from 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": "6a2d316ff48043bfbb6ca95452ce0acfc7c1b4cb5d9f440b85f1a9701b6faa51",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1645.0,
"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": 6239,
"elapsed_seconds": 1.6688881670000342,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 106,
"fraction": 0.53,
"adapters_found": {
"RAP": 88,
"BC_FLANK": 14,
"27F": 4
},
"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."
}