Genome sc|0003578


Database

NCBI Assembly

Accession

GCA_965235635.1

Genomics

Accession
NCBI Assembly:GCA_965235635.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 95.8%
  • Contamination: 1.2%
  • Quality: 89.8
Ribosomal and transfer RNA genes
  • 0 16S rRNAs
  • 0 23S rRNAs
  • tRNAs for 18 amino acids
Sequencing depth
91.0818 ×
Source
Other features
  • G+C Content: 29.3%
  • Coding Density: 92.33%
  • Codon Table: 11
  • N50: 273,736 bp
  • Contigs: 6
  • Largest Contig: 370,621 bp
  • Assembly Length: 1,078,822 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
This is a metagenome-assembled genome (MAG) that was assembled with FLYE v2.9.1-b1780 (settings: --nano-corr –meta –no-alt-contigs) from combined long- and short-read sequencing (Oxford Nanopore and Illumina NovaSeq). Contigs ≥3 kbp were used for hybrid binning (tetranucleotide frequencies and coverage data) using MaxBin-2.2.7, MetaBAT and MetaBAT2 and DAS Tool-1.1.3 to combine their predictions. Bins were manually curated and CheckM v1.1.3 was used to estimate bin completeness, contamination, and strain heterogeneity. rRNA genes were predicted with barrnap v0.9, tRNA genes were predicted with tRNAscan v1.4. Although the fragmentation of this long-read MAG is low (it consists of only 4 contigs), and it is highly complete (95.8%), it does not contain any rRNA genes. 
Automated checks
Complete

Last modified about 1 month ago

Sample Metadata

BioSample entries
Date
Collection Date: 2024-01-22
Location
Geographic Location Latitude: 33° 55′ 12″ S • 33° 55′ 12″ S
Geographic Location Longitude: 54° 16′ 18″ W • 54° 16′ 18″ W
View map of sampling locations
Toponym
Geographic Location Country And Or Sea: Uruguay
Environment
Isolation Source: Reservoir, Represa de India Muerta
Broad Scale Environmental Context: freshwater biome
Local Environmental Context: freshwater lake • freshwater lake biome
Environmental Medium: reservoir
Other
Ph: 8.35
Depth: 0.5
Temperature: 24.65
Chlorophyll: 5.05
Salinity: 0.05
Conductivity: 0.114
Package
Ena Checklist: ERC000047ERC000024
All retrieved samples

Metadata retrieved about 1 month ago


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