Genome assembly ASM3035908v1
- 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
RefSeq | GenBank | |
---|---|---|
Genome size | 6 Mb | 6 Mb |
Total ungapped length | 6 Mb | 6 Mb |
Number of contigs | 286 | 286 |
Contig N50 | 52.3 kb | 52.3 kb |
Contig L50 | 32 | 32 |
GC percent | 55.5 | 55.5 |
Genome coverage | 48.8x | 48.8x |
Assembly level | Contig | Contig |
View sequences | view 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
PRJNA980932Draft-whole genome sequencing of Enterobacterales possessing blaIMP-1 or blaIMP-6
Pathogen Detection Resource
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | GCF_030359085.1-RS_2024_06_28 | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Jun 28, 2024 | Jun 22, 2023 |
Genes | 5,945 | 5,938 |
Protein-coding | 5,634 | 5,697 |
Software version | 6.7 | 6.5 |
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.
Continue readingQuality 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 organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_002925905.1 | GCA_002925905.1 |
Organism name | Klebsiella michiganensis | Klebsiella michiganensis |
Type category | type | type |
ANI | 97.8% | 97.8% |
Assembly coverage | 86.79% | 86.79% |
Type assembly coverage | 84.08% | 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_030359085.1 | GCF_030359085.1 | ASM3035908v1 | Contig | Jun 27, 2023 |