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ASM1114061v1

Organism name:
Helicobacter pylori (e-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: C-Mx-2005-33
BioSample:
SAMN10881962
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_011140615.1 (latest)
RefSeq assembly accession:
GCF_011140615.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
SFZU01
Assembly method:
ABySS v. Dec-2016
Expected final version:
no
Genome coverage:
49x
Sequencing technology:
Illumina HiSeq

IDs: 6142751 [UID] 17454098 [GenBank] 17621078 [RefSeq]

See Genome Information for Helicobacter pylori

There are 4493 assemblies for this organism

See more

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 15:21:26
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)::1,726
CDSs (total)::1,677
Genes (coding)::1,541
CDSs (with protein)::1,541
Genes (RNA)::49
rRNAs::3, 4, 3 (5S, 16S, 23S)
complete rRNAs::3, 4, 3 (5S, 16S, 23S)
tRNAs::36
ncRNAs::3
Pseudo Genes (total)::136
CDSs (without protein)::136
Pseudo Genes (ambiguous residues)::1 of 136
Pseudo Genes (frameshifted)::73 of 136
Pseudo Genes (incomplete)::54 of 136
Pseudo Genes (internal stop)::31 of 136
Pseudo Genes (multiple problems)::23 of 136
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,730,331
Total ungapped length1,730,181
Gaps between scaffolds0
Number of scaffolds59
Scaffold N5069,359
Scaffold L508
Number of contigs62
Contig N5058,369
Contig L509
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)59

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
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
unplaced1,730,331591,730,18169,35930

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 type94.9187.5394.54
Best-match type94.9187.5394.54

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna