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Source database (GenBank or RefSeq) File type

ASM154238v2

Organism name:: Helicobacter pylori (e-proteobacteria)
Taxonomy check:: OK
Infraspecific name:: Strain: UM303S
BioSample:: SAMN04158747
BioProject:: PRJNA298384
Submitter:: University of Malaya-University of Western Australia
Date:: 2016/12/12
Assembly type:: na
Assembly level:: Contig
Genome representation:: full
GenBank assembly accession:: GCA_001542385.2 (latest)
RefSeq assembly accession:: GCF_001542385.2 (latest)
RefSeq assembly and GenBank assembly identical:: yes
WGS Project:: LQNA02
Assembly method:: SPAdes v. 3.6.0
Expected final version:: yes
Genome coverage:: 78.0x
Sequencing technology:: Illumina MiSeq

IDs: 914051 [UID] 3786158 [GenBank] 3843788 [RefSeq]

See Genome Information for Helicobacter pylori

Pathogen Detection Resources

There are 4493 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_001542385.2	=	GCF_001542385.2	ASM154238v2	Contig	Latest GenBank, Latest RefSeq
GCA_001542385.1	=	GCF_001542385.1	ASM154238v1	Scaffold	Replaced GenBank, Replaced RefSeq

Comment

Bacteria and source DNA available from Helicobacter Research Laboratory, High Impact Research, University of Malaya.
Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##Annotation Provider::NCBI
Annotation Date::11/03/2016 11:13:43
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::3.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,545
CDS (total)::1,503
Genes (coding)::1,410
CDS (coding)::1,410
Genes (RNA)::42
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
partial rRNAs:: 
tRNAs::36
ncRNAs::3
Pseudo Genes (total)::93
Pseudo Genes (ambiguous residues)::0 of 93
Pseudo Genes (frameshifted)::53 of 93
Pseudo Genes (incomplete)::34 of 93
Pseudo Genes (internal stop)::19 of 93
Pseudo Genes (multiple problems)::12 of 93
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	1,589,631
Total ungapped length	1,589,631
Number of contigs	35
Contig N50	91,842
Contig L50	5
Total number of chromosomes and plasmids	0
Number of component sequences (WGS or clone)	35

	ANI	Query coverage	Subject coverage
Declared type	96.55	96.13	90.07
Best-match type	96.55	96.13	90.07

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ASM154238v2

See Genome Information for Helicobacter pylori

Pathogen Detection Resources

There are 4493 assemblies for this organism

History (Show revision history)

Comment

Genome-Annotation-Data

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