Genome assembly ASM4102100v1
- NCBI RefSeq assembly
- GCF_041021005.1
- Submitted GenBank assembly
- GCA_041021005.1
- Taxon
- Staphylococcus epidermidis
- Strain
- B6
- WGS project
- JBEWZW01
- Submitter
- UNICAMP
- Date
- Aug 2, 2024
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 2.4 Mb | 2.4 Mb |
Total ungapped length | 2.4 Mb | 2.4 Mb |
Number of contigs | 54 | 54 |
Contig N50 | 169.8 kb | 169.8 kb |
Contig L50 | 5 | 5 |
GC percent | 32 | 32 |
Genome coverage | 649.0x | 649.0x |
Assembly level | Contig | Contig |
View sequences | view RefSeq sequences |
Sample details
- BioSample ID
- SAMN42156949
- Description
- Pathogen: environmental/food/other sample from Staphylococcus epidermidis
- Submitter
- UNICAMP
- Strain
- B6
- Host
- cow
- Collected by
- UNICAMP
- Collection date
- Apr 7, 2021
- Geographic location
- Brazil: So Paulo
- Isolation source
- milk
- Sample name
- B6.fasta
- Models
- Pathogen.env
- Package
- Pathogen.env.1.0
- Submission date
- 2024-06-28T11:33:04.373
- Publication date
- 2024-06-28T00:00:00.000
- Last updated
- 2024-07-03T11:41:19.464
Assembly methods
- Sequencing technology
- Illumina
- Assembly method
- SPAdes v. 4.0.0
Additional genomes
Browse all Staphylococcus epidermidis genomes (4985)BioProject
PRJNA1129503NAS isolated from milk of healthy cows and those with mastitis
Annotation details
RefSeq | |
---|---|
Provider | NCBI RefSeq |
Name | GCF_041021005.1-RS_2024_08_03 |
Date | Aug 3, 2024 |
Genes | 2,385 |
Protein-coding | 2,232 |
Software version | 6.7 |
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 (v1.2.3)
Completeness: 99.1% (43rd Percentile)
Contamination: 0%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Staphylococcus epidermidis 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
- Staphylococcus epidermidis
- Submitted species name
- Staphylococcus epidermidis
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_002087975.1 | GCA_002087975.1 |
Organism name | Staphylococcus epidermidis | Staphylococcus epidermidis |
Type category | type | type |
ANI | 99.66% | 99.66% |
Assembly coverage | 95.85% | 95.85% |
Type assembly coverage | 94.83% | 94.83% |
Chromosomes
Note: This contig-level genome assembly includes 54 contigs and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_041021005.1 | GCF_041021005.1 | ASM4102100v1 | Contig | Aug 2, 2024 |