As of May 2024, to guarantee the long-term sustainability of the portal and to continue to provide you with reference-quality genomes, we have transitioned the ATCC Genome Portal over to a supporting membership service. Learn more about ATCC supporting memberships here.
Overview
Genome Browser
Related Genomes
Quality Control
| Assembly Summary | |
|---|---|
| Date Published | September 13, 2024 |
| Length | 4,045,373 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 6 (2 Circularized) |
| Assembly Level | Chromosome |
| N50 | 2,834,659 nt |
| %GC | 47.47% |
| Organism Summary | |
|---|---|
| Name | ATCC® 25873™ |
| Isolation | Patient with clinical cholera |
| Biosafety Level | 2 |
| Type Strain | No |
| Annotations Summary | |
|---|---|
| Number of CDS | 3,601 |
| Number of Hypothetical Proteins | 241 |
| Number of tRNA | 96 |
| Number of 5s rRNA | 8 |
| Number of 16s rRNA | 8 |
| Number of 23s rRNA | 7 |
| Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 230,573 |
| Oxford Nanopore Median Q Score | 30 |
| Illumina Read Count | 8,871,674 |
| Illumina Mean Coverage Depth | 320.832× |
| Illumina Median Q Score | 34 |
| Contig | Start | End | Name | Protein Product | EC Number | Type | RefSeq ID | Jump |
|---|
Most similar genomes
No genomes with >95% similarity found.
Other members of this genus
No genomes found sharing the same genus.
Sequencing Quality Control
Quality control statistics on Illumina sequencing data.
4 out of 4 passed
PassedNumber of trimmed reads8,871,674
PassedMedian Q score, all bases34
PassedPercent of median Q scores per cycle greater than 25100%
PassedAmbiguous content (% N bases)0%
Assembly Quality Control
Metrics assessing the assembly quality
3 out of 3 passed
PassedEstimated genome completeness100%
PassedEstimated genome contamination0.03%
PassedAverage depth of coverage320.832×
Notes
This bacterium was assembled, annotated, and curated using Oatmeal v2.1. See our technical documentation for further details: https://docs.onecodex.com/en/articles/5357065-assembly-qc-and-annotation-pipeline-versions
This website uses cookies to ensure you get the best experience on our website. Learn moreDecline