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SAMN05560358
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
24,719
Reads
403
Observed features
4.954
Shannon
0.826
Evenness
403
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
SRR4036694
Per-run QC
- 16S identity
- 57.5%
- Q30
- 77.0%
- 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 52.6%
- Acidobacteriota 10.4%
- Bacteroidota 8.9%
- Chloroflexota 7.2%
- Actinomycetota 6.4%
- Bacillota 6.0%
- Myxococcota 2.1%
- everything else 6.4%
- Gammaproteobacteria 34.8%
- Alphaproteobacteria 17.8%
- Bacteroidia 8.9%
- Acidobacteriae 6.1%
- KD4-96 5.7%
- Actinobacteria 5.6%
- Holophagae 3.7%
- everything else 17.4%
- Lysobacterales 17.5%
- Burkholderiales 12.9%
- Incertae Sedis 8.2%
- Hyphomicrobiales 5.3%
- Micropepsales 4.7%
- Sphingomonadales 4.5%
- Chitinophagales 4.3%
- everything else 42.6%
- Rhodanobacteraceae 16.9%
- Incertae Sedis 10.9%
- Micropepsaceae 4.7%
- Sphingomonadaceae 4.5%
- Chitinophagaceae 4.3%
- Comamonadaceae 4.0%
- Oxalobacteraceae 3.8%
- everything else 50.9%
- Incertae Sedis 32.6%
- Rhodanobacter 16.8%
- Sphingomonas 3.9%
- Clostridium 3.1%
- Massilia 2.6%
- Bradyrhizobium 2.0%
- Candidatus Solibacter 1.9%
- everything else 37.2%
- uncultured bacterium 52.4%
- Rhodanobacter sp. 10.3%
- Rhodanobacter glycinis 5.8%
- metagenome 1.9%
- uncultured Bacteroidetes bacterium 1.6%
- uncultured soil bacterium 1.6%
- Bradyrhizobium elkanii 1.5%
- everything else 24.9%
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 73% 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 61% similar (genus)
- same collection date
- shared: 454 GS FLX Titanium, V3-V4
- composition 61% similar (genus)
- same collection date
- shared: 454 GS FLX Titanium, V3-V4
- composition 55% 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/.