Genome assembly ASM209400v1

Actions
NCBI RefSeq assembly
GCF_002094005.1
Submitted GenBank assembly
GCA_002094005.1
Taxon
Streptococcus salivarius
Strain
85-06 S24
WGS project
LXOU01
Submitter
State University of Campinas
Date
Apr 17, 2017

Assembly statistics

RefSeqGenBank
Genome size2.3 Mb2.3 Mb
Total ungapped length2.3 Mb2.3 Mb
Number of contigs1313
Contig N501.4 Mb1.4 Mb
Contig L5011
GC percent4040
Genome coverage10.0x10.0x
Assembly levelContigContig

Sample details

BioSample ID
SAMN04942660
Description
Streptococcus salivarius 85-06 S24
Submitter
State University of Campinas
Strain
85-06 S24
Latitude and longitude
22.43 S 47.38 W
Host disease
Sepsis
Host
Homo sapiens
Geographic location
Brazil
Collection date
2013-01
Collected by
Piracicaba Dental School, University of Campinas
Sample name
S24
Models
Pathogen.cl
Package
Pathogen.cl.1.0
Submission date
2016-05-04T12:28:04.860
Publication date
2016-09-30T00:50:35.580
Last updated
2016-09-30T00:50:35.580

Assembly methods

Sequencing technology
Illumina MiSeq
Assembly method
Velvet v. 1.2.07

Additional genomes

Browse all Streptococcus salivarius genomes (414)

BioProject

PRJNA320256

Streptococcus Genome sequencing and assembly

Annotation details

RefSeq
ProviderNCBI RefSeq
NameGCF_002094005.1-RS_2024_04_02
DateApr 2, 2024
Genes2,120
Protein-coding2,008
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 (v1.2.2)

Completeness: 98.02% (70th Percentile, dark blue bar)

Contamination: 1.25%

Completeness of Streptococcus salivarius RefSeq assemblies

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Streptococcus salivarius 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
Streptococcus salivarius
Submitted species name
Streptococcus salivarius

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_900636435.1GCA_900636435.1
Organism nameStreptococcus salivariusStreptococcus salivarius
Type categorytypetype
ANI96.23%96.23%
Assembly coverage85.99%85.99%
Type assembly coverage87.89%87.89%

Chromosomes

Note: This contig-level genome assembly includes 13 contigs and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_002094005.1GCF_002094005.1ASM209400v1ContigApr 17, 2017