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ASM50410v1

Organism name:
Pseudothermotoga hypogea DSM 11164 = NBRC 106472 (thermotogales)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: NBRC:106472
Infraspecific name:
Strain: NBRC 106472
BioSample:
SAMD00061031
BioProject:
PRJDB362
Submitter:
National Institute of Technology and Evaluation
Date:
2013/10/23
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_000504105.1 (latest)
RefSeq assembly accession:
GCF_000504105.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Newbler v. 2.6
Genome coverage:
140x
Sequencing technology:
454 GS-FLX Titanium; Illumina HiSeq 1000; AB 3730xl

IDs: 84471 [UID] 868158 [GenBank] 868178 [RefSeq]

See Genome Information for Pseudothermotoga hypogea

There are 3 assemblies for this organism

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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/


Strain NBRC 107921 available from NBRC culture collection (http://www.nbrc.nite.go.jp/e/).
The NBRC Whole Genome Shotgun Project aims to provide "reference genomes" of ... NBRC culture collection strains for identifying useful genes for taxonomic classification, risk/safety assessment, and industrial application, and for understanding the structure and evolution of microbial genomes.
(http://www.bio.nite.go.jp/ngac/e/project_wgs-e.html)  more

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::12/24/2023 09:46:33
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::2,152
CDSs (total)::2,100
Genes (coding)::2,093
CDSs (with protein)::2,093
Genes (RNA)::52
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::46
ncRNAs::3
Pseudo Genes (total)::7
CDSs (without protein)::7
Pseudo Genes (ambiguous residues)::0 of 7
Pseudo Genes (frameshifted)::2 of 7
Pseudo Genes (incomplete)::5 of 7
Pseudo Genes (internal stop)::0 of 7
CRISPR Arrays::4
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,165,165
Total ungapped length2,165,165
Total number of chromosomes and plasmids1

Supplemental Content

PubMed articles for this assembly

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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_000504115.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome AP014508.1=NC_022795.1

Assembly statistics

MoleculeTotal
Length
Chromosome 2,165,165

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Pseudothermotoga hypogea DSM 11164 = NBRC 106472Pseudothermotoga hypogea

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000816145.1Pseudothermotoga hypogea DSM 11164 = NBRC 106472type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000816145.1Pseudothermotoga hypogeatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.9999.8399.82
Best-match type99.9999.8399.82

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna