Genome assembly 17870_6#13
- Taxon
- Escherichia coli (E. coli)
- Strain
- VRES0580
- WGS project
- UDEX01
- Submitter
- SC
- Date
- Jun 30, 2018
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 5.2 Mb | 5.2 Mb |
Total ungapped length | 5.2 Mb | 5.2 Mb |
Number of scaffolds | 60 | 60 |
Scaffold N50 | 402.1 kb | 402.1 kb |
Scaffold L50 | 5 | 5 |
Number of contigs | 65 | 65 |
Contig N50 | 331.9 kb | 331.9 kb |
Contig L50 | 6 | 6 |
GC percent | 50.5 | 50.5 |
Genome coverage | 100.0x | 100.0x |
Assembly level | Scaffold | Scaffold |
Sample details
- BioSample ID
- SAMEA3752319
- Description
- 17870_6#13
- Submitter
- EBI
- ENA last update
- Jul 1, 2015
- ENA-CHECKLIST
- ERC000011
- ENA-FIRST-PUBLIC
- 2016-01-12T09:05:50Z
- ENA-LAST-UPDATE
- 2018-03-09T13:36:50Z
- External Id
- SAMEA3752319
- INSDC center name
- SC
- INSDC first public
- 2016-01-12T09:05:50Z
- INSDC last update
- 2018-03-09T13:36:50Z
- INSDC status
- public
- Submitter Id
- VRES0580-sc-2341060
- Collection date
- 2015
- Geographic location
- United Kingdom
- Host health state
- carriage
- Isolation source
- feces
- Sample name
- VRES0580-sc-2341060
- Scientific name
- Escherichia coli
- Host
- Meleagris gallopavo
- Strain
- VRES0580
- Supplier name
- VRES0580
- SRA
- ERS784640
- Models
- Generic
- Package
- Generic.1.0
- Submission date
- 2016-01-13T08:11:34.673
- Publication date
- 2016-01-12T00:00:00.000
- Last updated
- 2024-02-06T09:24:12.000
Additional genomes
Browse all Escherichia coli genomes (311371)BioProject
PRJEB8776VRES_farm
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | SC |
Name | GCF_900481605.1-RS_2024_06_16 | Annotation submitted by SC |
Date | Jun 16, 2024 | Jun 30, 2018 |
Genes | 5,129 | 4,907 |
Protein-coding | 4,781 | 4,813 |
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 (v1.2.2)
Completeness: 99.1% (59th Percentile)
Contamination: 1.03%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Escherichia coli 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
- Escherichia coli
- Submitted species name
- Escherichia coli
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_002853715.1 | GCA_002853715.1 |
Organism name | Escherichia coli | Escherichia coli |
Type category | claderef | claderef |
ANI | 99.8% | 99.8% |
Assembly coverage | 92.2% | 92.2% |
Type assembly coverage | 93.01% | 93.01% |
Chromosomes
Note: This scaffold-level genome assembly includes 60 scaffolds and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_900481605.1 | GCF_900481605.1 | 17870_6#13 | Scaffold | Jun 30, 2018 |