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ASM803307v1

Organism name:
Helicobacter pylori (e-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: G-Mx-2003-108
BioSample:
SAMN09935047
BioProject:
PRJNA203445
Submitter:
University of California at Davis
Date:
2019/08/20
Assembly type:
na
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_008033075.1 (latest)
RefSeq assembly accession:
GCF_008033075.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
HGAP v. 15-May
Expected final version:
no
Genome coverage:
363x
Sequencing technology:
PacBio RSII

IDs: 4373501 [UID] 13280748 [GenBank] 13343838 [RefSeq]

See Genome Information for Helicobacter pylori

Pathogen Detection Resources

There are 4493 assemblies for this organism

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History (Show revision history)

Comment

Sequence not circularized
The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::03/16/2023 01:33:37
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)::1,601
CDSs (total)::1,556
Genes (coding)::1,469
CDSs (with protein)::1,469
Genes (RNA)::45
rRNAs::2, 2, 2 (5S, 16S, 23S)
complete rRNAs::2, 2, 2 (5S, 16S, 23S)
tRNAs::36
ncRNAs::3
Pseudo Genes (total)::87
CDSs (without protein)::87
Pseudo Genes (ambiguous residues)::0 of 87
Pseudo Genes (frameshifted)::66 of 87
Pseudo Genes (incomplete)::20 of 87
Pseudo Genes (internal stop)::16 of 87
Pseudo Genes (multiple problems)::12 of 87
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,686,171
Total ungapped length1,685,971
Gaps between scaffolds0
Number of scaffolds2
Scaffold N501,667,946
Scaffold L501
Number of contigs2
Contig N501,667,846
Contig L501
Total number of chromosomes and plasmids2
Number of component sequences (WGS or clone)2

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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_008033085.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP032044.1=NZ_CP032044.1
Plasmid unnamedCP032045.1=NZ_CP032045.1

Assembly statistics

MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
All1,686,17121,685,9711,667,94620
Chromosome 1,667,94611,667,8461,667,94610
Plasmid unnamed18,225118,12518,22510

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Helicobacter pyloriHelicobacter pylori

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000258845.1Helicobacter pylori NCTC 11637 = CCUG 17874 = ATCC 43504 = JCM 12093type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000258845.1Helicobacter pyloritype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type95.1288.7793.51
Best-match type95.1288.7793.51

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna