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ASM2792496v1

Organism name:
Limnohabitans sp. TEGF004 (b-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: TEGF004
BioSample:
SAMD00549751
BioProject:
PRJDB14571
Submitter:
Laboratory for Microbiome Sciences, Center for Integrative Medical Sciences, RIKEN
Date:
2022/12/03
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_027924965.1 (latest)
RefSeq assembly accession:
GCF_027924965.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Canu v. 2.1.1
Genome coverage:
79x
Sequencing technology:
PacBio Sequel II

IDs: 15482851 [UID] 39812148 [GenBank] 42574528 [RefSeq]

History (Show revision history)

Comment

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/
Annotated by DFAST https://dfast.ddbj.nig.ac.jp/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::05/11/2023 07:19:49
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)::2,729
CDSs (total)::2,678
Genes (coding)::2,640
CDSs (with protein)::2,640
Genes (RNA)::51
rRNAs::2, 2, 2 (5S, 16S, 23S)
complete rRNAs::2, 2, 2 (5S, 16S, 23S)
tRNAs::42
ncRNAs::3
Pseudo Genes (total)::38
CDSs (without protein)::38
Pseudo Genes (ambiguous residues)::0 of 38
Pseudo Genes (frameshifted)::14 of 38
Pseudo Genes (incomplete)::25 of 38
Pseudo Genes (internal stop)::5 of 38
Pseudo Genes (multiple problems)::6 of 38
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,773,381
Total ungapped length2,773,381
Total number of chromosomes and plasmids2

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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_027924975.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome AP027056.1=NZ_AP027056.1
Plasmid pTEGF4AP027057.1=NZ_AP027057.1

Assembly statistics

MoleculeTotal
Length
All2,773,381
Chromosome 2,624,462
Plasmid pTEGF4148,919

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Limnohabitans sp. TEGF004Limnohabitans sp. TEGF004

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_003063475.1Limnohabitans curvustype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.6275.1768.80

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna