Genome assembly ASM293645v2

FTP
Actions
NCBI RefSeq assembly
GCF_002936455.2
Submitted GenBank assembly
GCA_002936455.2
Taxon
Klebsiella pneumoniae subsp. pneumoniae
Strain
CRK0358
WGS project
PTFT02
Submitter
JCVI
Date
Nov 14, 2018

Assembly statistics

RefSeqGenBank
Genome size5.7 Mb5.7 Mb
Total ungapped length5.7 Mb5.7 Mb
Number of contigs130130
Contig N50224.8 kb224.8 kb
Contig L5088
GC percent5757
Genome coverage240.8x240.8x
Assembly levelContigContig
View sequencesview RefSeq sequencesview GenBank sequences

Sample details

BioSample ID
SAMN08513449
Description
Sample of CRK0358, ARLG_2104
Comment
Sample of Klebsiella pneumoniae subsp. pneumoniae ARLG_2104
Submitter
JCVI
Collected by
Unknown
Collection date
2012
Geographic location
USA: Ohio
Host
Homo sapiens
Host disease
Unknown
Isolation source
urine
Latitude and longitude
Unknown
Strain
CRK0358
Sub species
pneumoniae
SRA
SRS2943613
JCVI
ARLG-2104_biosample
Models
Pathogen.cl
Package
Pathogen.cl.1.0
Submission date
2018-02-09T12:11:18.433
Publication date
2018-02-09T00:00:00.000
Last updated
2024-10-21T10:11:45.923

Assembly methods

Sequencing technology
Illumina NextSeq 500
Comment
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/
Assembly method
SPAdes v. 3.1.1

Additional genomes

Browse all Klebsiella pneumoniae genomes (79671)

BioProject

PRJNA433394

Klebsiella pneumoniae Genome sequencing and assembly

Pathogen Detection Resource

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameGCF_002936455.2-RS_2024_10_23NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateOct 23, 2024Nov 3, 2018
Genes5,6755,776
Protein-coding5,4285,524
Software version6.84.6

About PGAP

The NCBI Prokaryotic Genome Annotation Pipeline (PGAP) uses multiple approaches to predict protein-coding and RNA genes and other functional elements directly from sequence.

Continue reading

Quality analysis

CheckM analysis (v1.2.3)

Completeness: 98.71% (57th Percentile)

Contamination: 1.37%

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Klebsiella pneumoniae CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).

Taxonomy check

Taxonomy check status
OK
Best match status
subspecies_match
Submitted organism name
Klebsiella pneumoniae subsp. pneumoniae
Submitted species name
Klebsiella pneumoniae

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_000788015.1GCA_000788015.1
Organism nameKlebsiella pneumoniae subsp. pneumoniaeKlebsiella pneumoniae
Type categorytypetype
ANI99.22%99.22%
Assembly coverage90.43%90.43%
Type assembly coverage89.79%89.79%

Chromosomes

Note: This contig-level genome assembly includes 130 contigs and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_002936455.2GCF_002936455.2ASM293645v2ContigNov 14, 2018