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ASM1114054v1

Organism name:
Helicobacter pylori (e-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: C-Mx-2010-10
BioSample:
SAMN10881965
BioProject:
PRJNA203445
Submitter:
University of California at Davis
Date:
2020/03/10
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_011140545.1 (latest)
RefSeq assembly accession:
GCF_011140545.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
SFZR01
Assembly method:
ABySS v. Dec-2016
Expected final version:
no
Genome coverage:
44x
Sequencing technology:
Illumina HiSeq

IDs: 6142741 [UID] 17454058 [GenBank] 17620898 [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

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::02/07/2019 15:18:07
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.7
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,656
CDSs (total)::1,612
Genes (coding)::1,512
CDSs (with protein)::1,512
Genes (RNA)::44
rRNAs::2, 1, 2 (5S, 16S, 23S)
complete rRNAs::2, 1, 2 (5S, 16S, 23S)
tRNAs::36
ncRNAs::3
Pseudo Genes (total)::100
CDSs (without protein)::100
Pseudo Genes (ambiguous residues)::1 of 100
Pseudo Genes (frameshifted)::76 of 100
Pseudo Genes (incomplete)::18 of 100
Pseudo Genes (internal stop)::17 of 100
Pseudo Genes (multiple problems)::12 of 100
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,674,444
Total ungapped length1,674,394
Gaps between scaffolds0
Number of scaffolds76
Scaffold N5050,950
Scaffold L5011
Number of contigs77
Contig N5050,950
Contig L5011
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)76

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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
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
unplaced1,674,444761,674,39450,95010

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 type94.9689.2693.31
Best-match type94.9689.2693.31

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna