SRR18996198 · Gut microbiome
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 (%) |
|---|---|---|
| Enterococcus faecium | Enterococcus | 23.2638 |
| Brochothrix campestris | Brochothrix | 10.6063 |
| Enterococcus columbae | Enterococcus | 10.3239 |
| Bartonella australis | Bartonella | 7.5649 |
| Macrococcus canis | Macrococcus | 7.1913 |
| Bartonella taylorii | Bartonella | 3.9232 |
| Macrococcus brunensis | Macrococcus | 3.7372 |
| Bartonella vinsonii | Bartonella | 3.7117 |
| Brochothrix thermosphacta | Brochothrix | 2.7359 |
| Bartonella grahamii | Bartonella | 2.5225 |
| Enterococcus faecalis | Enterococcus | 2.3840 |
| Macrococcus bovicus | Macrococcus | 2.0353 |
| Bartonella apis | Bartonella | 2.0161 |
| Macrococcus epidermidis | Macrococcus | 1.7850 |
| Macrococcus goetzii | Macrococcus | 1.7850 |
| Enterococcus avium | Enterococcus | 1.6139 |
| Macrococcus caseolyticus | Macrococcus | 1.5911 |
| Streptococcus iniae | Streptococcus | 1.4801 |
| Bartonella bacilliformis | Bartonella | 0.8781 |
| Enterococcus hirae | Enterococcus | 0.8780 |
| Bartonella krasnovii | Bartonella | 0.8768 |
| Macrococcus hajekii | Macrococcus | 0.8737 |
| Bartonella tribocorum | Bartonella | 0.8601 |
| Macrococcus equipercicus | Macrococcus | 0.8557 |
| Streptococcus mitis | Streptococcus | 0.7767 |
| Bartonella rattimassiliensis | Bartonella | 0.7761 |
| Bartonella ancashensis | Bartonella | 0.6896 |
| Streptococcus downei | Streptococcus | 0.6782 |
| Bartonella doshiae | Bartonella | 0.6643 |
| Enterococcus pseudoavium | Enterococcus | 0.4965 |
| Bartonella rochalimae | Bartonella | 0.4248 |
Saved public metadata
{
"run_accession": "SRR18996198",
"study_accession": "PRJNA827637",
"sample_accession": "SAMN27615854",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "236811",
"base_count": "349576681",
"fastq_bytes": "312447761",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR189/098/SRR18996198/SRR18996198_1.fastq.gz",
"sample_title": "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": "aec3a1106f0a0558ba880de2ab906541a06de00be054559145c9910758651ebb",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1486.0,
"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": 14755,
"elapsed_seconds": 1.5626316770001267,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 1,
"fraction": 0.005,
"adapters_found": {
"27F": 1
},
"should_trim": false
},
"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."
}