JSON

Genome sc|0001744

Name

Thalassarchaeum betaeTs

Database

NCBI Assembly

Accession

GCA_003193925.1

Genomics

Accession
NCBI Assembly:GCA_003193925.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 92.2%
  • Contamination: 0.0%
  • Quality: 92.2
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 79.0%)
  • tRNAs for 19 amino acids
Sequencing depth
68.4 ×
Source
Other features
  • G+C Content: 61.0%
  • Coding Density: 93.6%
  • Codon Table: 11
  • N50: 104,796 bp
  • Contigs: 23
  • Largest Contig: 252,755 bp
  • Assembly Length: 1,479,542 bp
  • Ambiguous Assembly Fraction: 0.00047%
Submitter comments
 The completeness and contamination estimates provided by CheckM are based on the presence of predefined lineage-specific marker sets [17]. These marker sets can be further refined using checkm qa --out_format 4 (list of marker genes and their counts), which allows screening a lineage, in our case Candidatus Poseidoniales (MG II), to identify markers which are absent from all MAGs in the lineage. Based on this workflow we excluded 11 marker genes (TIGR00537, TIGR02237, TIGR00422, PF01287.15, TIGR03677, PF09249.6, PF13685.1, TIGR00162, PF02649.9, PF03684.8, PF01849.13) that were absent across all 270 Ca. Poseidoniales MAGs, resulting in 177 marker genes being used for completeness and contamination estimates. 
Automated checks
Complete
Last modified 4 days ago

Sample Metadata

BioSample entries
Date
Collection Date: 2012-01-18
Location
Lat Lon: 18.23 N 81.48 W
Toponym
Not detected
Environment
Sample Type: metagenomic assembly
Isolation Source: hydrothermal plume in the Mid-Cayman Rise
Other
Not detected
Package
Ncbi Submission Package: Microbe.1.0 • Metagenome.environmental.1.0
Biosamplemodel: Microbe, viral or environmental • Metagenome or environmental
All retrieved samples
Metadata retrieved 4 days ago


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