SRR28257775 · Gut microbiome
SRR28257775
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 (%) |
|---|---|---|
| Paraclostridium bifermentans | Paraclostridium | 26.7809 |
| Streptococcus salivarius | Streptococcus | 19.6824 |
| Streptococcus downei | Streptococcus | 7.0569 |
| Bacillus thuringiensis | Bacillus | 6.4058 |
| Bacillus cereus | Bacillus | 5.1693 |
| Streptococcus gordonii | Streptococcus | 4.0104 |
| Streptococcus anginosus | Streptococcus | 3.7933 |
| Streptococcus pyogenes | Streptococcus | 2.9472 |
| Klebsiella pneumoniae | Klebsiella | 2.4707 |
| Acinetobacter baumannii | Acinetobacter | 2.2561 |
| Streptococcus sanguinis | Streptococcus | 2.2119 |
| Bacillus velezensis | Bacillus | 2.1018 |
| Streptococcus mitis | Streptococcus | 1.6590 |
| Bacillus amyloliquefaciens | Bacillus | 1.4352 |
| Streptococcus pneumoniae | Streptococcus | 1.3824 |
| Streptococcus dysgalactiae | Streptococcus | 1.1560 |
| Lactococcus lactis | Lactococcus | 1.0319 |
| Bacillus subtilis | Bacillus | 0.7372 |
| Streptococcus oralis | Streptococcus | 0.6573 |
| Klebsiella michiganensis | Klebsiella | 0.5320 |
| Bacillus pumilus | Bacillus | 0.5296 |
| Bacillus anthracis | Bacillus | 0.4824 |
| Streptococcus suis | Streptococcus | 0.4337 |
| Streptococcus alactolyticus | Streptococcus | 0.4170 |
| Streptococcus periodonticum | Streptococcus | 0.4052 |
| Streptococcus cristatus | Streptococcus | 0.3627 |
| Acinetobacter pittii | Acinetobacter | 0.3591 |
| Streptococcus agalactiae | Streptococcus | 0.3408 |
| Streptococcus infantis | Streptococcus | 0.3318 |
| Streptococcus pluranimalium | Streptococcus | 0.3076 |
| Streptococcus porcinus | Streptococcus | 0.2924 |
| Streptococcus sobrinus | Streptococcus | 0.2532 |
| Paraclostridium benzoelyticum | Paraclostridium | 0.2511 |
| Streptococcus marmotae | Streptococcus | 0.2500 |
| Klebsiella aerogenes | Klebsiella | 0.2421 |
| Streptococcus parasanguinis | Streptococcus | 0.2322 |
| Streptococcus halotolerans | Streptococcus | 0.2279 |
| Streptococcus intermedius | Streptococcus | 0.2264 |
| Streptococcus sinensis | Streptococcus | 0.2057 |
| Bacillus coagulans | Bacillus | 0.1862 |
| Streptococcus acidominimus | Streptococcus | 0.1854 |
Saved public metadata
{
"run_accession": "SRR28257775",
"study_accession": "PRJNA1083214",
"sample_accession": "SAMN40240941",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "242775",
"base_count": "366583995",
"fastq_bytes": "353126505",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR282/075/SRR28257775/SRR28257775_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": "bb6aa2b3c313f873ae3edefe2ed696c6e53a546a2b9aab01ac56cc62530b3d49",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1545.0,
"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": 7567,
"elapsed_seconds": 2.242513449999933,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 46,
"fraction": 0.23,
"adapters_found": {
"27F": 45,
"BC_FLANK": 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."
}