JSON

Genome sc|0005498

Name

Hollandina grandis

Database

NCBI Assembly

Accession

GCA_054669045.1

Genomics

Accession
NCBI Assembly:GCA_054669045.1
Type
Single-Cell Amplified Genome (SAG)
Estimated Quality Metrics
  • Completeness: 95.5%
  • Contamination: 1.7%
  • Quality: 87.0
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 20 amino acids
Sequencing depth
500.0 ×
Source
Other features
  • G+C Content: 49.1%
  • Coding Density: 82.03%
  • Codon Table: 11
  • N50: 21,574 bp
  • Contigs: 312
  • Largest Contig: 65,900 bp
  • Assembly Length: 3,553,180 bp
  • Ambiguous Assembly Fraction: 0.021%
Submitter comments
 Metrics are estimated from the Prokka prediction. The tRNA identification was done with tRNAscan-SE. Completeness was estimated using CheckM. CheckM2 provides a completeness of  84.7% with 1.3% contamination. Estimating the same genome completeness with BUSCO, using the spirochaetes_odb10 dataset, yields a completeness of 95.8% with 0.4% duplicated genes.  
Automated checks
Complete
Last modified 3 months ago

Sample Metadata

BioSample entries
Date
Collection Date: 2024-01
Location
Lat Lon: 16° 30′ 39″ N, 61° 27′ 56″ W
View map of sampling locations
Toponym
Geo Loc Name: Guadeloupe
Environment
Isolation Source: single cell amplified by MDA; termite gut
Env Broad Scale: terrestrial biome
Env Local Scale: woodland biome
Env Medium: tropical woodland biome
Other
Not detected
Package
Not detected
All retrieved samples
Metadata retrieved 3 months ago

Sequencing Experiments

Single-cell WGA sequencing of Hollandina grandis


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