SRR28267155 · 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 (%) |
|---|---|---|
| Chryseobacterium indologenes | Chryseobacterium | 21.8770 |
| Kocuria rosea | Kocuria | 12.5843 |
| Neisseria lactamica | Neisseria | 9.2302 |
| Kocuria varians | Kocuria | 8.4585 |
| Neisseria dentiae | Neisseria | 7.9230 |
| Neisseria animalis | Neisseria | 4.1383 |
| Neisseria meningitidis | Neisseria | 3.4290 |
| Niabella drilacis | Niabella | 2.8262 |
| Niabella yanshanensis | Niabella | 2.7218 |
| Gallicola barnesae | Gallicola | 2.0982 |
| Niabella soli | Niabella | 2.0791 |
| Neisseria polysaccharea | Neisseria | 1.9153 |
| Kocuria rhizophila | Kocuria | 1.7855 |
| Epidermidibacterium keratini | Epidermidibacterium | 1.6832 |
| Corynebacterium bovis | Corynebacterium | 1.6639 |
| Chryseobacterium jeonii | Chryseobacterium | 1.5263 |
| Neisseria subflava | Neisseria | 1.5173 |
| Neisseria zalophi | Neisseria | 1.4294 |
| Kocuria subflava | Kocuria | 1.3143 |
| Kocuria indica | Kocuria | 1.2348 |
| Lysobacter panacisoli | Lysobacter | 1.1298 |
| Propioniciclava sinopodophylli | Propioniciclava | 1.0297 |
| Corynebacterium matruchotii | Corynebacterium | 0.9275 |
| Niabella tibetensis | Niabella | 0.7659 |
| Xenophilus aerolatus | Xenophilus | 0.7378 |
| Campylobacter sputorum | Campylobacter | 0.7378 |
| Dysgonomonas macrotermitis | Dysgonomonas | 0.7148 |
| Propioniciclava tarda | Propioniciclava | 0.5612 |
| Bradyrhizobium elkanii | Bradyrhizobium | 0.4842 |
| Streptococcus downei | Streptococcus | 0.3920 |
| Enterococcus faecium | Enterococcus | 0.3689 |
| Granulicatella balaenopterae | Granulicatella | 0.3689 |
| Mucilaginibacter polysacchareus | Mucilaginibacter | 0.3459 |
Saved public metadata
{
"run_accession": "SRR28267155",
"study_accession": "PRJNA1082425",
"sample_accession": "SAMN40210672",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "GENOMIC",
"library_selection": "PCR",
"read_count": "6374",
"base_count": "10389042",
"fastq_bytes": "8545973",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR282/055/SRR28267155/SRR28267155_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": "4e110b55f974230a08778555e06d029e6489f0220667fb7c576d72dcac232839",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1637.0,
"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": 6374,
"reads_skipped": 1841,
"elapsed_seconds": 1.0647240869999983,
"reads_submitted": 6374,
"reads_after_filter": 6374,
"adapter_scan": {
"sampled": 200,
"matched": 114,
"fraction": 0.57,
"adapters_found": {
"RAP": 87,
"27F": 15,
"BC_FLANK": 11,
"1492R_rc": 1
},
"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."
}