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SAMN05560355
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
10,092
Reads
209
Observed features
4.471
Shannon
0.837
Evenness
209
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
SRR4036691
Per-run QC
- 16S identity
- 52.2%
- Q30
- 76.0%
- Region
- V3-V4
- Read length
- 450 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 55.8%
- Acidobacteriota 13.5%
- Bacteroidota 9.1%
- Ignavibacteriota 8.8%
- Chloroflexota 3.6%
- Actinomycetota 3.3%
- Gemmatimonadota 1.6%
- everything else 4.4%
- Gammaproteobacteria 43.6%
- Alphaproteobacteria 12.2%
- Holophagae 10.0%
- Bacteroidia 9.1%
- Ignavibacteria 8.8%
- Acidobacteriae 2.9%
- Actinobacteria 2.9%
- everything else 10.6%
- Burkholderiales 28.8%
- Lysobacterales 11.7%
- Holophagales 9.6%
- Ignavibacteriales 8.8%
- Hyphomicrobiales 6.5%
- Chitinophagales 6.4%
- Incertae Sedis 3.8%
- everything else 24.5%
- Comamonadaceae 16.4%
- Holophagaceae 9.6%
- Rhodanobacteraceae 9.1%
- Chitinophagaceae 6.3%
- Incertae Sedis 5.7%
- Ignavibacteriaceae 5.2%
- Alcaligenaceae 5.0%
- everything else 42.7%
- Incertae Sedis 34.2%
- Rhodanobacter 6.0%
- Alicycliphilus 5.5%
- Ignavibacterium 5.2%
- Castellaniella 5.0%
- Methylibium 4.4%
- Dokdonella 2.9%
- everything else 36.8%
- uncultured bacterium 55.2%
- metagenome 5.1%
- Methylibium sp. BAC199 4.4%
- Rhodanobacter sp. 3.2%
- uncultured Rhodanobacter sp. 2.8%
- Comamonas sp. MPI12 2.8%
- uncultured Bacteroidetes/Chlorobi group bacterium 2.7%
- everything else 23.9%
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 70% 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 58% 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/.