Genome sc|0005498

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

• SRA: SRX30009263

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

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Last modified 3 months ago

Sample Metadata

BioSample entries

• BioSample: SAMN50451380

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

• SAMN50451380: MIMAG Metagenome-assembled Genome sample from Hollandina grandis

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Metadata retrieved 3 months ago