SRR28257757 · Gut microbiome
SRR28257757
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 (%) |
|---|---|---|
| Streptococcus salivarius | Streptococcus | 25.7874 |
| Streptococcus anginosus | Streptococcus | 17.8162 |
| Streptococcus downei | Streptococcus | 8.2688 |
| Streptococcus pyogenes | Streptococcus | 6.8174 |
| Streptococcus gordonii | Streptococcus | 6.6161 |
| Streptococcus sanguinis | Streptococcus | 4.4468 |
| Veillonella parvula | Veillonella | 4.2986 |
| Streptococcus agalactiae | Streptococcus | 3.4762 |
| Streptococcus dysgalactiae | Streptococcus | 2.6799 |
| Veillonella dispar | Veillonella | 2.6786 |
| Streptococcus periodonticum | Streptococcus | 2.3618 |
| Veillonella rodentium | Veillonella | 2.2863 |
| Streptococcus pneumoniae | Streptococcus | 2.1926 |
| Streptococcus intermedius | Streptococcus | 1.8578 |
| Streptococcus acidominimus | Streptococcus | 1.7951 |
| Streptococcus mitis | Streptococcus | 1.4844 |
| Streptococcus halotolerans | Streptococcus | 1.2402 |
| Streptococcus pluranimalium | Streptococcus | 0.8653 |
| Veillonella criceti | Veillonella | 0.7645 |
| Streptococcus mutans | Streptococcus | 0.7332 |
| Streptococcus sobrinus | Streptococcus | 0.6709 |
| Veillonella ratti | Veillonella | 0.4771 |
| Veillonella seminalis | Veillonella | 0.3848 |
Saved public metadata
{
"run_accession": "SRR28257757",
"study_accession": "PRJNA1083214",
"sample_accession": "SAMN40240932",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "7045",
"base_count": "10526420",
"fastq_bytes": "10362515",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR282/057/SRR28257757/SRR28257757_1.fastq.gz",
"sample_title": "",
"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": "21fbfaddd3aeb812fe88f513bae747e3dc5ecfbae323c3fc0fd33f2efe3e154a",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1599,
"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": 7045,
"reads_skipped": 1680,
"elapsed_seconds": 0.7555124099999375,
"reads_submitted": 7045,
"reads_after_filter": 7045,
"adapter_scan": {
"sampled": 200,
"matched": 21,
"fraction": 0.105,
"adapters_found": {
"27F": 21
},
"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."
}