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ASM144442v1

Organism name:
Pseudohongiella spirulinae (g-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: KCTC 32221
BioSample:
SAMN04260401
BioProject:
PRJNA301918
Submitter:
KCTC (Korean Collection for Type Cultures)
Date:
2015/11/17
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_001444425.1 (latest)
RefSeq assembly accession:
GCF_001444425.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
SMRT Analysis v. 2.3.0
Genome coverage:
273x
Sequencing technology:
PacBio RS II with P6-C4 chemistry

IDs: 583691 [UID] 2685548 [GenBank] 2688988 [RefSeq]

See Genome Information for Pseudohongiella spirulinae

History (Show revision history)

Comment

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::02/05/2023 20:31:51
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.4
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::3,096
CDSs (total)::3,047
Genes (coding)::3,020
CDSs (with protein)::3,020
Genes (RNA)::49
rRNAs::2, 2, 2 (5S, 16S, 23S)
complete rRNAs::2, 2, 2 (5S, 16S, 23S)
tRNAs::39
ncRNAs::4
Pseudo Genes (total)::27
CDSs (without protein)::27
Pseudo Genes (ambiguous residues)::0 of 27
Pseudo Genes (frameshifted)::1 of 27
Pseudo Genes (incomplete)::24 of 27
Pseudo Genes (internal stop)::4 of 27
Pseudo Genes (multiple problems)::2 of 27
##Genome-Annotation-Data-END##

MIGS-Data

##MIGS-Data-START##
investigation_type::bacteria_archaea
project_name::Genome sequencing of Pseudohongiella spirulinae
lat_lon::18N 109E
depth::Missing
alt_elev::Missing
country::China
environment::plant-associated
geo_loc_name::China
collection_date::2012-05-14
env_biome::ENVO:00009001
env_feature::ENVO:02000006
env_material::ENVO:00002149
ploidy::haploid
num_replicons::1
ref_biomaterial::PMID 23979563
source_mat_id::KCTC 32221
biotic_relationship::free living
specific_host::Arthrospira platensis
trophic_level::chemoheterotroph
rel_to_oxygen::aerobe
isol_growth_condt::PMID 23979563
sequencing_meth::PacBio RS II sequencing
assembly::SMRT Analysis v2.3.0
finishing_strategy::complete; 273X coverage; 1 contig
annot_source::prodigal v2.6.1
##MIGS-Data-END##

Global statistics

Total sequence length3,345,119
Total ungapped length3,345,119
Total number of chromosomes and plasmids1

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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_001444435.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP013189.1=NZ_CP013189.1

Assembly statistics

MoleculeTotal
Length
Chromosome 3,345,119

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Pseudohongiella spirulinaePseudohongiella spirulinae

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_019139835.1Pseudomonas xanthosomatistype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type84.930.280.15

ANI result

Taxonomy check statusBest match statusComment
OKlow-coverageAssembly is the type-strain, no match is expected