Genome assembly ASM1764142v1
- NCBI RefSeq assembly
- GCF_017641425.1
- Submitted GenBank assembly
- GCA_017641425.1
- Taxon
- Enterococcus casseliflavus
- Strain
- 3UPD1
- WGS project
- SIZF01
- Submitter
- University of KwaZulu-Natal (UKZN), South Africa
- Date
- Mar 30, 2021
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 3.6 Mb | 3.6 Mb |
Total ungapped length | 3.6 Mb | 3.6 Mb |
Number of contigs | 86 | 86 |
Contig N50 | 118.6 kb | 118.6 kb |
Contig L50 | 9 | 9 |
GC percent | 42.5 | 42.5 |
Genome coverage | 99.0x | 99.0x |
Assembly level | Contig | Contig |
View sequences | view RefSeq sequences |
Sample details
- BioSample ID
- SAMN10984517
- Description
- Pathogen: environmental/food/other sample from Enterococcus casseliflavus
- Submitter
- University of KwaZulu-Natal (UKZN), South Africa
- Bar Code No
- BRU
- Strain
- 3UPD1
- Collected by
- Christiana Shobo
- Collection date
- Nov 24, 2017
- Geographic location
- South Africa: Ethekwini district, KwaZulu-Natal
- Host
- Hospital environment
- Host disease
- not applicable
- Type of hospital
- Tertiary hospital
- Isolation source
- Peadiatric - patient file
- Latitude and longitude
- 29.4843 S 30.5038 E
- Sample name
- 3UPD1
- Models
- Pathogen.env
- Package
- Pathogen.env.1.0
- Submission date
- 2019-02-21T14:22:05.773
- Publication date
- 2019-12-31T00:00:00.000
- Last updated
- 2021-02-24T12:20:41.473
Assembly methods
- Sequencing technology
- Illumina MiSeq
- 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
- CLC NGS Cell v. 2018-09-01T00:00:00
Additional genomes
Browse all Enterococcus casseliflavus genomes (243)BioProject
PRJNA523601Bacteria dissemination in different level of health care in South Africa: the effectiveness of infections prevention and control
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | GCF_017641425.1-RS_2024_04_23 | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Apr 23, 2024 | Feb 22, 2019 |
Genes | 3,415 | 3,483 |
Protein-coding | 3,286 | 3,287 |
Software version | 6.7 | 4.7 |
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: 96.71% (31st Percentile, dark blue bar)
Contamination: 2.91%
Completeness of Enterococcus casseliflavus RefSeq assemblies
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Enterococcus casseliflavus 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
- Enterococcus casseliflavus
- Submitted species name
- Enterococcus casseliflavus
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_001544095.1 | GCA_001544095.1 |
Organism name | Enterococcus casseliflavus NBRC 100478 | Enterococcus casseliflavus |
Type category | type | type |
ANI | 99.11% | 99.11% |
Assembly coverage | 85.33% | 85.33% |
Type assembly coverage | 86.66% | 86.66% |
Chromosomes
Note: This contig-level genome assembly includes 86 contigs and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_017641425.1 | GCF_017641425.1 | ASM1764142v1 | Contig | Mar 30, 2021 |