Genome assembly Kleb_pneu_CHS93_V1

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NCBI RefSeq assembly
GCF_001030995.1
Submitted GenBank assembly
GCA_001030995.1
Taxon
Klebsiella pneumoniae
Strain
CHS93
WGS project
LEVE01
Submitter
Broad Institute
Date
Jun 22, 2015

Assembly statistics

RefSeqGenBank
Genome size5.6 Mb5.6 Mb
Total ungapped length5.6 Mb5.6 Mb
Number of scaffolds1717
Scaffold N504.7 Mb4.7 Mb
Scaffold L5011
Number of contigs3737
Contig N50507.1 kb507.1 kb
Contig L5044
GC percent57.557.5
Genome coverage133.0x133.0x
Assembly levelScaffoldScaffold
View sequencesview RefSeq sequencesview GenBank sequences

Sample details

BioSample ID
SAMN03280236
Submitter
Broad Institute
Strain
CHS93
Collection date
2014
Geographic location
USA
Host
Homo sapiens
Sample name
CHS93
SRA
SRS1011268
Models
Pathogen.cl
Package
Pathogen.cl.1.0
Submission date
2015-01-09T11:31:57.697
Publication date
2015-01-09T11:31:57.697
Last updated
2015-07-25T10:10:37.177

Assembly methods

Sequencing technology
Illumina
Comment
Please be aware that the annotation is done automatically with little or no manual curation.
Assembly method
allpaths v. R48559

Additional genomes

Browse all Klebsiella pneumoniae genomes (80703)

BioProject

PRJNA271899

Sequencing of Carbapenem resistant bacteria Genome sequencing

Pathogen Detection Resource

Publications

Showing 1 of 1

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Annotation details

RefSeqGenBank
ProviderNCBI RefSeqBroad Institute
NameGCF_001030995.1-RS_2025_01_05Annotation submitted by Broad Institute
DateJan 5, 2025Jun 22, 2015
Genes5,5615,384
Protein-coding5,3345,288
Software version6.9
View RefSeq annotationView GenBank annotation

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.

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Quality analysis

CheckM analysis (v1.2.3)

Completeness: 98.66% (53rd Percentile, dark blue bar)

Contamination: 0.21%

Completeness of Klebsiella pneumoniae RefSeq assemblies

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
derived_species_match
Submitted organism name
Klebsiella 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
ANI99.78%99.78%
Assembly coverage95.25%95.25%
Type assembly coverage92.66%92.66%

Chromosomes

Note: This scaffold-level genome assembly includes 17 scaffolds and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_001030995.1GCF_001030995.1Kleb_pneu_CHS93_V1ScaffoldJun 22, 2015