Genome assembly ASM2074018v1
- NCBI RefSeq assembly
- GCF_020740185.1
- Submitted GenBank assembly
- GCA_020740185.1
- Taxon
- Rouxiella badensis
- Strain
- 20GA0366
- WGS project
- JAJGAT01
- Submitter
- University of Georgia
- Date
- Nov 3, 2021
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 5.3 Mb | 5.3 Mb |
Total ungapped length | 5.3 Mb | 5.3 Mb |
Number of contigs | 59 | 59 |
Contig N50 | 271.5 kb | 271.5 kb |
Contig L50 | 7 | 7 |
GC percent | 52.5 | 52.5 |
Genome coverage | 257.0x | 257.0x |
Assembly level | Contig | Contig |
View sequences | view RefSeq sequences | view GenBank sequences |
Sample details
- BioSample ID
- SAMN22725816
- Description
- Microbe sample from Rouxiella badensis
- Submitter
- University of Georgia
- Strain
- 20GA0366
- Host
- Onion
- Collection date
- 2020
- Geographic location
- USA: Georgia
- Sample type
- Monoisolate
- Sample name
- 20GA0366
- Models
- Microbe, viral or environmental
- Package
- Microbe.1.0
- Submission date
- 2021-10-29T00:03:52.933
- Publication date
- 2021-10-29T00:00:00.000
- Last updated
- 2021-10-29T01:01:04.970
Assembly methods
- Sequencing technology
- Illumina NovaSeq
- 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. 3.14.1
Additional genomes
Browse all Rouxiella badensis genomes (15)BioProject
PRJNA776088Rouxiella badensis, a new pathogen causing bacterial decay of onion bulb
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Feb 25, 2024 | Oct 29, 2021 |
Genes | 4,877 | 4,884 |
Protein-coding | 4,719 | 4,736 |
Software version | 6.6 | 5.3 |
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: 99.17% (88th Percentile)
Contamination: 0%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Enterobacteriales 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
- Rouxiella badensis
- Submitted species name
- Rouxiella badensis
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_002093665.1 | GCA_002093665.1 |
Organism name | Rouxiella badensis | Rouxiella badensis |
Type category | type | type |
ANI | 99.71% | 99.71% |
Assembly coverage | 87.74% | 87.74% |
Type assembly coverage | 96.96% | 96.96% |
Chromosomes
Note: This contig-level genome assembly includes 59 contigs and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_020740185.1 | GCF_020740185.1 | ASM2074018v1 | Contig | Nov 3, 2021 |