SRR28267158 · 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 (%) |
|---|---|---|
| Arcobacter trophiarum | Arcobacter | 17.8741 |
| Neisseria lactamica | Neisseria | 17.7554 |
| Neisseria dentiae | Neisseria | 13.5924 |
| Chryseobacterium indologenes | Chryseobacterium | 10.8562 |
| Neisseria animalis | Neisseria | 7.7029 |
| Neisseria meningitidis | Neisseria | 5.6792 |
| Neisseria polysaccharea | Neisseria | 5.0143 |
| Kocuria rosea | Kocuria | 2.6039 |
| Kocuria varians | Kocuria | 2.5592 |
| Neisseria subflava | Neisseria | 2.0808 |
| Niabella drilacis | Niabella | 1.8536 |
| Pasteurella multocida | Pasteurella | 1.3460 |
| Lysobacter panacisoli | Lysobacter | 1.2805 |
| Niabella yanshanensis | Niabella | 1.1819 |
| Niabella soli | Niabella | 1.0972 |
| Arcobacter butzleri | Arcobacter | 0.8825 |
| Ottowia pentelensis | Ottowia | 0.7297 |
| Neisseria zoodegmatis | Neisseria | 0.4658 |
| Neisseria animaloris | Neisseria | 0.4612 |
| Niabella tibetensis | Niabella | 0.4406 |
| Terrimonas rubra | Terrimonas | 0.4108 |
| Chryseobacterium balustinum | Chryseobacterium | 0.3868 |
| Novosphingobium aromaticivorans | Novosphingobium | 0.3777 |
| Neisseria zalophi | Neisseria | 0.3413 |
| Tessaracoccus flavus | Tessaracoccus | 0.3304 |
| Spirosoma spitsbergense | Spirosoma | 0.3029 |
| Neisseria gonorrhoeae | Neisseria | 0.2823 |
| Propioniciclava sinopodophylli | Propioniciclava | 0.2685 |
| Kocuria indica | Kocuria | 0.2547 |
| Pasteurella bettyae | Pasteurella | 0.2333 |
| Snodgrassella alvi | Snodgrassella | 0.2152 |
| Neisseria dumasiana | Neisseria | 0.2133 |
| Chryseobacterium indoltheticum | Chryseobacterium | 0.1916 |
| Neisseria canis | Neisseria | 0.1887 |
| Gallicola barnesae | Gallicola | 0.1790 |
| Novosphingobium fuchskuhlense | Novosphingobium | 0.1592 |
| Priestia aryabhattai | Priestia | 0.1308 |
| Bradyrhizobium elkanii | Bradyrhizobium | 0.0757 |
Saved public metadata
{
"run_accession": "SRR28267158",
"study_accession": "PRJNA1082425",
"sample_accession": "SAMN40210669",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "GENOMIC",
"library_selection": "PCR",
"read_count": "80325",
"base_count": "131981971",
"fastq_bytes": "105102148",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR282/058/SRR28267158/SRR28267158_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": "0c715dfcbda7ff49cb1e1745d7ef31f42be3721fbe3ffd5cc39a482580cc760c",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1649.0,
"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": 5253,
"elapsed_seconds": 1.9697316990000218,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 99,
"fraction": 0.495,
"adapters_found": {
"RAP": 91,
"BC_FLANK": 5,
"27F": 3
},
"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."
}