Genome assembly ASM4102100v1

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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

RefSeqGenBank
Genome size2.4 Mb2.4 Mb
Total ungapped length2.4 Mb2.4 Mb
Number of contigs5454
Contig N50169.8 kb169.8 kb
Contig L5055
GC percent3232
Genome coverage649.0x649.0x
Assembly levelContigContig
View sequencesview 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

PRJNA1129503

NAS isolated from milk of healthy cows and those with mastitis

Annotation details

RefSeq
ProviderNCBI RefSeq
NameGCF_041021005.1-RS_2024_08_03
DateAug 3, 2024
Genes2,385
Protein-coding2,232
Software version6.7

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.

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Quality 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 organismBest match type-strain
Type assemblyGCA_002087975.1GCA_002087975.1
Organism nameStaphylococcus epidermidisStaphylococcus epidermidis
Type categorytypetype
ANI99.66%99.66%
Assembly coverage95.85%95.85%
Type assembly coverage94.83%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_041021005.1GCF_041021005.1ASM4102100v1ContigAug 2, 2024