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SAMN05560345
Metagenome or environmental sample from sediment metagenome
- 1 run(s)
- 454 GS FLX Titanium
- V3-V4
- present
derived from this sample's metadata and per-run QC
12,566
Reads
248
Observed features
4.443
Shannon
0.806
Evenness
248
Chao1
Where and when
- Collected
- 2012-10-03
- Depth
- not recorded
- Device
- not recorded
- Salinity
- not recorded
- Coordinates
- 36.34, -87.03
- Platforms
- 454 GS FLX Titanium
Runs
SRR4036689
Per-run QC
- 16S identity
- 56.0%
- Q30
- 76.1%
- Region
- V3-V4
- Read length
- 446 bp
- PhiX
- 0.0%
- Adapter (worst)
- 0.0%
Most abundant features
Read share of the five largest features in this sample.
Taxonomic composition
- Bacteria 100.0%
- Pseudomonadota 41.6%
- Chloroflexota 10.6%
- Bacillota 10.5%
- Acidobacteriota 6.9%
- Gemmatimonadota 5.5%
- Ignavibacteriota 5.1%
- Candidatus Eremiobacterota 4.7%
- everything else 15.1%
- Gammaproteobacteria 30.8%
- Alphaproteobacteria 10.9%
- Gemmatimonadia 5.5%
- JG30-KF-CM66 5.2%
- Clostridia 5.2%
- Ignavibacteria 5.1%
- Eremiobacteria 4.7%
- everything else 32.7%
- Burkholderiales 15.6%
- Incertae Sedis 14.3%
- Lysobacterales 13.8%
- Gemmatimonadales 5.5%
- Ignavibacteriales 5.1%
- Desulfitobacteriales 4.0%
- Hyphomicrobiales 3.8%
- everything else 38.0%
- Incertae Sedis 17.1%
- Rhodanobacteraceae 13.8%
- Comamonadaceae 5.6%
- Gemmatimonadaceae 5.5%
- Alcaligenaceae 5.0%
- PHOS-HE36 4.8%
- Desulfitobacteriaceae 4.0%
- everything else 44.3%
- Incertae Sedis 46.2%
- Rhodanobacter 9.5%
- Castellaniella 5.0%
- Desulfosporosinus 4.0%
- Clostridium 3.5%
- Comamonas 3.5%
- SWB02 2.5%
- everything else 25.7%
- uncultured bacterium 57.5%
- groundwater metagenome 8.7%
- uncultured Bacteroidetes/Chlorobi group bacterium 4.8%
- gamma proteobacterium OR-113 3.8%
- Comamonas sp. MPI12 3.3%
- uncultured beta proteobacterium 3.3%
- Clostridium frigidicarnis 2.0%
- everything else 16.7%
Read share of the largest taxa at each rank, up to seven names per level. The dropdown switches level without reloading, so one page shows domain through species. Ranks are those assigned against SILVA 138.2 (SINTAX).
Similar samples
genus composition and metadata- composition 69% similar (genus)
- same collection date
- shared: 454 GS FLX Titanium, V3-V4
- composition 68% similar (genus)
- same collection date
- shared: 454 GS FLX Titanium, V3-V4
- composition 66% similar (genus)
- same collection date
- shared: 454 GS FLX Titanium, V3-V4
- composition 66% similar (genus)
- same collection date
- shared: 454 GS FLX Titanium, V3-V4
- composition 62% similar (genus)
- same collection date
- shared: 454 GS FLX Titanium, V3-V4
Nearest samples within this study by Bray-Curtis similarity of their genus composition.
Missing or wrong data?
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Figures computed from the released count table and per-run QC reports. The release itself is at https://huggingface.co/datasets/hmacgregor/ampliconflow-releases/resolve/main/PRJNA338649-20260926/.