SRR13402264 · Gut microbiome
MIMARKS Survey related 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 (%) |
|---|---|---|
| Massilia varians | Massilia | 53.8755 |
| Methylobacterium aerolatum | Methylobacterium | 5.0072 |
| Massilia niastensis | Massilia | 4.6380 |
| Massilia violacea | Massilia | 3.2916 |
| Massilia oculi | Massilia | 3.0816 |
| Bacillus amyloliquefaciens | Bacillus | 2.8339 |
| Massilia niabensis | Massilia | 2.6464 |
| Massilia albidiflava | Massilia | 2.5617 |
| Massilia flava | Massilia | 1.9064 |
| Methylobacterium indicum | Methylobacterium | 1.8081 |
| Massilia suwonensis | Massilia | 1.4912 |
| Staphylococcus argensis | Staphylococcus | 1.4288 |
| Cutibacterium acnes | Cutibacterium | 1.3457 |
| Massilia umbonata | Massilia | 1.2672 |
| Methylobacterium radiotolerans | Methylobacterium | 1.2649 |
| Massilia putida | Massilia | 1.2354 |
| Massilia jejuensis | Massilia | 1.1630 |
| Methylobacterium thuringiense | Methylobacterium | 1.1079 |
| Bacillus velezensis | Bacillus | 0.9931 |
| Methylobacterium phyllosphaerae | Methylobacterium | 0.9652 |
| Massilia haematophila | Massilia | 0.9613 |
| Massilia armeniaca | Massilia | 0.9033 |
| Massilia aerilata | Massilia | 0.7961 |
| Staphylococcus pseudintermedius | Staphylococcus | 0.7789 |
| Massilia kyonggiensis | Massilia | 0.6691 |
| Bacillus thuringiensis | Bacillus | 0.6095 |
| Stenotrophomonas daejeonensis | Stenotrophomonas | 0.5677 |
| Methylobacterium terrae | Methylobacterium | 0.5278 |
| Streptomyces flavofungini | Streptomyces | 0.2733 |
Saved public metadata
{
"run_accession": "SRR13402264",
"study_accession": "PRJNA691201",
"sample_accession": "SAMN17283451",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "23536",
"base_count": "30217227",
"fastq_bytes": "28291916",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR134/064/SRR13402264/SRR13402264_1.fastq.gz",
"sample_title": "MIMARKS Survey related 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": "3c1b6d65f84fca7247dc3caf78ecd7b065938726ebf50058faa616cddb643cc1",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1630.0,
"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": 15153,
"elapsed_seconds": 1.561423700999967,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 9,
"fraction": 0.045,
"adapters_found": {
"27F": 9
},
"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."
}