JSON

Genome sc|0001647

Name

Not registered

Database

INSDC Nucleotide

Accession

TBD

Marked for deletion

This genome is currently not registered as the nomenclatural type or the reference genome of any names in the Registry, and it will be purged from the database soon unless it is linked to a name

Genomics

Accession
INSDC Nucleotide:TBD
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.0%
  • Quality: 100.0
Ribosomal and transfer RNA genes
  • 2 16S rRNAs (up to 100.0%)
  • 2 23S rRNAs (up to 100.0%)
  • tRNAs for 20 amino acids
Sequencing depth
320.0 ×
Source
Other features
  • G+C Content: 45.1%
Submitter comments
 The genome of the symbiont of O. gallaeciana was assembled using long reads from Nanopore sequencing, utilizing Flye v2.8.3 with “--meta” option. The generated assembly was polished four times with Racon v1.4.13 with (-m 8 -x -6 -g -8 -w 500) option and then further polished once with Medaka v1.0.3 (https://nanoporetech.github.io/medaka) with the r941_min_high_g344 model using the MinION raw reads. Subsequent polishing with Illumina short reads was performed using ntHits v0.1.1 (https://github.com/bcgsc/nthits) and ntEdit v1.3.2 with the default settings. Duplications (heterozygous regions) were purged with PURGEhaplotigs v1.0.3 and this ended up in the final genome assembly.
Automated checks
Failed: Cannot find ncbi:nuccore:TBD
Edit genome data
Last modified 9 months ago

Sample Metadata

BioSample entries
Date
Collection Date: 2021-07-05
Location
Not detected
Toponym
Geo Loc Name: United Kingdom
Environment
Not detected
Other
Host: Homo sapiens
Package
Ncbi Package: Generic.1.0
Ena Checklist: ERC000033
All retrieved samples
Metadata retrieved 9 months ago


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