Genome assembly ASM3035908v1

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NCBI RefSeq assembly
GCF_030359085.1
Submitted GenBank assembly
GCA_030359085.1
Taxon
Klebsiella michiganensis
Strain
TUM13835
WGS project
JAUCJE01
Submitter
Toho university
Date
Jun 27, 2023

Assembly statistics

RefSeqGenBank
Genome size6 Mb6 Mb
Total ungapped length6 Mb6 Mb
Number of contigs286286
Contig N5052.3 kb52.3 kb
Contig L503232
GC percent55.555.5
Genome coverage48.8x48.8x
Assembly levelContigContig
View sequencesview RefSeq sequences

Sample details

BioSample ID
SAMN35654516
Description
Pathogen: clinical or host-associated sample from Klebsiella michiganensis
Submitter
Toho university
Strain
TUM13835
Collected by
Toho University School of Medicine
Collection date
2013
Geographic location
Japan
Host
Homo sapiens
Isolation source
drain drainage
Sample name
Enterobacterales TUM13835
SRA
SRS17912326
Models
Pathogen.cl
Package
Pathogen.cl.1.0
Submission date
2023-06-07T01:44:05.350
Publication date
2023-06-07T00:00:00.000
Last updated
2023-06-08T03:29:36.320

Assembly methods

Sequencing technology
Illumina MiSeq
Comment
The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Assembly method
SPAdes v. 3.9.1

Additional genomes

Browse all Klebsiella michiganensis genomes (1172)

BioProject

PRJNA980932

Draft-whole genome sequencing of Enterobacterales possessing blaIMP-1 or blaIMP-6

Pathogen Detection Resource

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameGCF_030359085.1-RS_2024_06_28NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateJun 28, 2024Jun 22, 2023
Genes5,9455,938
Protein-coding5,6345,697
Software version6.76.5

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 (v1.2.2)

Completeness: 99.06% (22nd Percentile)

Contamination: 0.44%

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

Taxonomy check

Taxonomy check status
OK
Best match status
species_match
Submitted organism name
Klebsiella michiganensis
Submitted species name
Klebsiella michiganensis

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_002925905.1GCA_002925905.1
Organism nameKlebsiella michiganensisKlebsiella michiganensis
Type categorytypetype
ANI97.8%97.8%
Assembly coverage86.79%86.79%
Type assembly coverage84.08%84.08%

Chromosomes

Note: This contig-level genome assembly includes 286 contigs and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_030359085.1GCF_030359085.1ASM3035908v1ContigJun 27, 2023