SRR23225806 · Gut microbiome

MFRC08

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 (%)
Stenotrophomonas maltophilia	Stenotrophomonas	38.0374
Brevundimonas diminuta	Brevundimonas	11.6758
Comamonas testosteroni	Comamonas	6.9423
Comamonas kerstersii	Comamonas	4.5183
Comamonas terrigena	Comamonas	4.3678
Clostridium sardiniense	Clostridium	4.2870
Brevundimonas naejangsanensis	Brevundimonas	4.2469
Clostridium tertium	Clostridium	2.9629
Clostridium baratii	Clostridium	2.8283
Solibacillus silvestris	Solibacillus	2.4635
Acinetobacter haemolyticus	Acinetobacter	1.7694
Pseudogemmobacter bohemicus	Pseudogemmobacter	1.4331
Solibacillus isronensis	Solibacillus	1.1378
Acinetobacter cumulans	Acinetobacter	1.1053
Stenotrophomonas nitritireducens	Stenotrophomonas	1.0482
Pseudomonas alcaligenes	Pseudomonas	1.0225
Stenotrophomonas ginsengisoli	Stenotrophomonas	1.0072
Brevundimonas halotolerans	Brevundimonas	0.8613
Comamonas phosphati	Comamonas	0.7540
Sphingomonas colocasiae	Sphingomonas	0.6151
Clostridium butyricum	Clostridium	0.4604
Clostridium paraputrificum	Clostridium	0.4097
Clostridium isatidis	Clostridium	0.3847
Pseudomonas mendocina	Pseudomonas	0.3614
Ruminococcus champanellensis	Ruminococcus	0.3567
Terrisporobacter mayombei	Terrisporobacter	0.3567
Sphingobacterium rhinocerotis	Sphingobacterium	0.3506
Stenotrophomonas acidaminiphila	Stenotrophomonas	0.3489
Clostridium saccharoperbutylacetonicum	Clostridium	0.3449
Acinetobacter baumannii	Acinetobacter	0.3402
Clostridium budayi	Clostridium	0.3356
Paenibacillus protaetiae	Paenibacillus	0.3260
Clostridium septicum	Clostridium	0.3139
Brevundimonas vesicularis	Brevundimonas	0.2906
Clostridium carnis	Clostridium	0.2891
Comamonas serinivorans	Comamonas	0.2832
Clostridium beijerinckii	Clostridium	0.2695
Brevundimonas subvibrioides	Brevundimonas	0.2523
Flavobacterium tangerinum	Flavobacterium	0.2399
Acinetobacter radioresistens	Acinetobacter	0.1712
Acinetobacter tandoii	Acinetobacter	0.1568
Clostridium subterminale	Clostridium	0.1415
Solibacillus cecembensis	Solibacillus	0.1322

Saved public metadata

{
  "run_accession": "SRR23225806",
  "study_accession": "PRJNA926923",
  "sample_accession": "SAMN32886368",
  "instrument_platform": "OXFORD_NANOPORE",
  "instrument_model": "MinION",
  "library_strategy": "AMPLICON",
  "library_source": "OTHER",
  "library_selection": "PCR",
  "read_count": "24022",
  "base_count": "34930635",
  "fastq_bytes": "26255756",
  "fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR232/006/SRR23225806/SRR23225806_1.fastq.gz",
  "sample_title": "MFRC08",
  "scientific_name": "gut metagenome"
}

Public files

SRR23225806_1.fastq.gz

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": "65aef54ccf9d44b0ef1584fc9d3eb145fa0f9de4dd6260b0e23d0245400662ac",
  "length_window_bp": [
    1200,
    2000
  ],
  "median_read_length": 1489.0,
  "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": 3473,
    "elapsed_seconds": 1.9440088690002995,
    "reads_submitted": 20000,
    "reads_after_filter": 20000,
    "adapter_scan": {
      "sampled": 200,
      "matched": 24,
      "fraction": 0.12,
      "adapters_found": {
        "BC_FLANK": 24
      },
      "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."
}