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ASM828112v1

Organism name:
Helicobacter pylori (e-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: C-Mx-2010-12
BioSample:
SAMN09935061
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_008281125.1 (latest)
RefSeq assembly accession:
GCF_008281125.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
HGAP v. 15-Apr
Expected final version:
no
Genome coverage:
81x
Sequencing technology:
PacBio RSII

IDs: 4515471 [UID] 13615188 [GenBank] 13756328 [RefSeq]

See Genome Information for Helicobacter pylori

There are 4493 assemblies for this organism

See more

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 01:28:29
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)::1,578
CDSs (total)::1,533
Genes (coding)::1,441
CDSs (with protein)::1,441
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)::92
CDSs (without protein)::92
Pseudo Genes (ambiguous residues)::0 of 92
Pseudo Genes (frameshifted)::70 of 92
Pseudo Genes (incomplete)::17 of 92
Pseudo Genes (internal stop)::13 of 92
Pseudo Genes (multiple problems)::8 of 92
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,658,253
Total ungapped length1,658,153
Gaps between scaffolds0
Number of scaffolds1
Scaffold N501,658,253
Scaffold L501
Number of contigs1
Contig N501,658,153
Contig L501
Total number of chromosomes and plasmids1
Number of component sequences (WGS or clone)1

Supplemental Content

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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_008281135.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP032024.1=NZ_CP032024.1

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
Chromosome 1,658,25311,658,1531,658,25310

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_001312765.1Helicobacter pyloritype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001312765.1Helicobacter pyloritype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type94.9590.9494.14
Best-match type94.9590.9494.14

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna