Genome assembly ASM4008171v1
- NCBI RefSeq assembly
- GCF_000733315.1
- Submitted GenBank assembly
- GCA_000733315.1
- Taxon
- Vibrio sp. ER1A
- Strain
- ER1A
- WGS project
- JPJA01
- Submitter
- Institute of Marine and Environmental Technology
- Date
- Jul 25, 2014
Assembly statistics
RefSeq | |
---|---|
Genome size | 6.6 Mb |
Total ungapped length | 6.1 Mb |
Number of scaffolds | 108 |
Scaffold N50 | 394.3 kb |
Scaffold L50 | 4 |
Number of contigs | 211 |
Contig N50 | 68.3 kb |
Contig L50 | 26 |
GC percent | 44 |
Genome coverage | 140.0x |
Assembly level | Scaffold |
Sample details
- BioSample ID
- SAMN02898119
- Description
- Microbe sample from Vibrio sp. ER1A
- Submitter
- Institute of Marine and Environmental Technology
- Strain
- ER1A
- Collection date
- 2005
- Geographic location
- USA: Hawaii, Honolulu, Black Point Bay
- Host
- Elysia rufescens
- Sample name
- Vibrio sp. strain ER1A
- Models
- Microbe, viral or environmental
- Package
- Microbe.1.0
- Submission date
- 2014-06-30T14:10:13.550
- Publication date
- 2014-07-01T12:44:06.370
- Last updated
- 2014-11-06T17:12:18.160
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: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/
- Assembly method
- CLC Genomics v. April 2014
Additional genomes
Browse all Vicinamibacterales bacterium genomes (1)BioProject
PRJNA253939Vibrio sp. ER1A Genome sequencing and assembly
Annotation details
RefSeq | |
---|---|
Provider | NCBI RefSeq |
Name | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Jan 25, 2024 |
Genes | 5,712 |
Protein-coding | 5,523 |
Software version | 6.6 |
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: 99.43% (100th Percentile)
Contamination: 1.63%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Vibrio CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).
Taxonomy check
- Taxonomy check status
- OK
- Best match status
- genus_match
- Submitted organism name
- Vibrio sp. ER1A
- Submitted species name
- Vibrio sp. ER1A
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | n/a | GCA_900088415.1 |
Organism name | n/a | Vibrio mediterranei |
Type category | n/a | type |
ANI | n/a | 98.13% |
Assembly coverage | n/a | 81.64% |
Type assembly coverage | n/a | 87.74% |
Chromosomes
Note: This scaffold-level genome assembly includes 108 scaffolds and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_040081715.1 | n/a | ASM4008171v1 | Contig | Jun 5, 2024 |