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ASM803247v1

Organism name:
Helicobacter pylori (e-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: G-Mx-2011-147
BioSample:
SAMN09935054
BioProject:
PRJNA203445
Submitter:
University of California at Davis
Date:
2019/08/20
Assembly type:
na
Assembly level:
Chromosome
Genome representation:
full
Excluded from RefSeq:
  • annotation fails completeness check
  • many frameshifted proteins
GenBank assembly accession:
GCA_008032475.1 (latest)
RefSeq assembly accession:
GCF_008032475.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
HGAP v. 15-May
Expected final version:
no
Genome coverage:
274x
Sequencing technology:
PacBio RSII

IDs: 4373221 [UID] 13280248 [GenBank] 13342578 [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
Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline 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
Annotation Date::08/30/2018 11:11:10
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,634
CDS (total)::1,586
Genes (coding)::1,455
CDS (coding)::1,455
Genes (RNA)::48
rRNAs::2, 2, 2 (5S, 16S, 23S)
complete rRNAs::2, 2, 2 (5S, 16S, 23S)
tRNAs::39
ncRNAs::3
Pseudo Genes (total)::131
Pseudo Genes (ambiguous residues)::0 of 131
Pseudo Genes (frameshifted)::101 of 131
Pseudo Genes (incomplete)::22 of 131
Pseudo Genes (internal stop)::23 of 131
Pseudo Genes (multiple problems)::14 of 131
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,667,329
Total ungapped length1,667,229
Gaps between scaffolds0
Number of scaffolds1
Scaffold N501,667,329
Scaffold L501
Number of contigs1
Contig N501,667,229
Contig L501
Total number of chromosomes and plasmids1
Number of component sequences (WGS or clone)1

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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 (GCA_008032485.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP032037.1=NZ_CP032037.1

Assembly statistics

MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
Chromosome 1,667,32911,667,2291,667,32910

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 type95.1389.6193.34
Best-match type95.1389.6193.34

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna