JSON

Genome sc|0003555

Name

“Pernthalerella lacunae”

Database

NCBI Assembly

Accession

GCA_965194545.1

Genomics

Accession
NCBI Assembly:GCA_965194545.1
Cultures
Strain sc|0038789
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.84%
  • Quality: 95.8
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
394.8 ×
Source
Other features
  • G+C Content: 54.9%
  • Coding Density: 90.88%
  • Codon Table: 11
  • N50: 754,786 bp
  • Contigs: 7
  • Largest Contig: 1,003,687 bp
  • Assembly Length: 2,804,680 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
Genome of a culture that was harvested by filtration on 0.22 µm filters; DNA was extracted with the Quiagen MagAttract HMW DNA kit. Sequencing was done with Illuminia Novaseq 6000, trimming of reads with BBMap v36.x, assembly with SPAdes v3.12.0. The genome was manually polished in Geneious 10 by repeated rounds of read mapping. Completeness and contamination were assessed with CheckM.
Automated checks
Complete
Last modified about 2 months ago

Sample Metadata

BioSample entries
Date
Collection Date: 2019-11-04
Location
Geographic Location Latitude: 45° 58′ N
Geographic Location Longitude: 8° 39′ E
View map of sampling locations
Toponym
Geographic Location Country And Or Sea: Italy
Environment
Broad Scale Environmental Context: aquatic
Local Environmental Context: Lake Maggiore - Italian regions of Piedmont, Lombardy and Swiss canton Ticino
Environmental Medium: water
Other
Depth: 5
Package
Ena Checklist: ERC000024
All retrieved samples
Metadata retrieved about 2 months ago

Sequencing Experiments

Illumina NovaSeq 6000 paired end sequencing


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