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ASM2287048v1

Organism name:
Halococcus dombrowskii (euryarchaeotes)
Taxonomy check:
OK
Infraspecific name:
Strain: H4
BioSample:
SAMN27257334
BioProject:
PRJNA822675
Submitter:
MacLea Lab & Binomica Labs collaboration
Date:
2022/04/11
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_022870485.1 (latest)
RefSeq assembly accession:
GCF_022870485.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Trycycler v. v0.5.3
Expected final version:
no
Genome coverage:
1529.0x
Sequencing technology:
Oxford Nanopore

IDs: 12473401 [UID] 32656408 [GenBank] 32770878 [RefSeq]

See Genome Information for Halococcus dombrowskii

Pathogen Detection Resources

History (Show revision history)

Comment

Bacteria and source DNA available from MacLea Lab
The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::04/27/2023 06:11:16
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.5
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::4,056
CDSs (total)::3,990
Genes (coding)::3,871
CDSs (with protein)::3,871
Genes (RNA)::66
rRNAs::3, 3, 3 (5S, 16S, 23S)
complete rRNAs::3, 3, 3 (5S, 16S, 23S)
tRNAs::55
ncRNAs::2
Pseudo Genes (total)::119
CDSs (without protein)::119
Pseudo Genes (ambiguous residues)::0 of 119
Pseudo Genes (frameshifted)::46 of 119
Pseudo Genes (incomplete)::91 of 119
Pseudo Genes (internal stop)::21 of 119
Pseudo Genes (multiple problems)::33 of 119
CRISPR Arrays::5
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,965,466
Total ungapped length3,965,466
Total number of chromosomes and plasmids6

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Assembly Information

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
Assembly Unit: Primary Assembly (GCF_022870495.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP095005.1=NZ_CP095005.1
Plasmid unnamed1CP095006.1=NZ_CP095006.1
Plasmid unnamed2CP095007.1=NZ_CP095007.1
Plasmid unnamed3CP095008.1=NZ_CP095008.1
Plasmid unnamed4CP095009.1=NZ_CP095009.1
Plasmid unnamed5CP095010.1=NZ_CP095010.1

Assembly statistics

MoleculeTotal
Length
All3,965,466
Chromosome 2,767,537
Plasmid unnamed1406,045
Plasmid unnamed2260,739
Plasmid unnamed3123,302
Plasmid unnamed4350,887
Plasmid unnamed556,956

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Halococcus dombrowskiiHalococcus dombrowskii

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000336695.1Halococcus morrhuaetype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type96.4765.1586.36

ANI result

Taxonomy check statusBest match statusComment
OKmismatchAssembly is the type-strain, mismatch is within genus and expected