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Overview
Genome Browser
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Quality Control
| Organism Summary | |
|---|---|
| Catalog Number | ATCC® 25780™ |
| Strain Alias | VPI 1584 [CDC 370] |
| Tags | Methylation DataType Strain |
| Biosafety Level | 1 |
| Type Strain | Yes |
| Assembly Summary | |
|---|---|
| Date Published | March 5, 2024 |
| Length | 3,593,863 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 2 (1 Circularized) |
| N50 | 3,587,171 nt |
| %GC | 30.02% |
| Annotations Summary | |
|---|---|
| Number of CDS | 3374 |
| Number of Hypothetical Proteins | 492 |
| Number of tRNA | 80 |
| Number of 5s rRNA | 10 |
| Number of 16s rRNA | 9 |
| Number of 23s rRNA | 9 |
| Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 81,295 |
| Oxford Nanopore Median Q Score | 25 |
| Illumina Read Count | 12,385,104 |
| Illumina Mean Coverage Depth | 505.917× |
| Illumina Median Q Score | 34 |
| Contig | Start | End | Name | Protein Product | EC Number | Type | RefSeq ID | Jump |
|---|
Most similar genomes
The following genomes have the greatest genomic similarity to this one (≥95% average nucleotide identity):
All Genomes
| Taxonomic Name | ATCC Product Page | Strain Alias | Tags | Date Published | Length | Download |
|---|
Displaying Genome
| Sequencing Quality Control | |
|---|---|
| Number of trimmed reads | 12,385,104 |
| Median Q score, all bases | 34 |
| Percent of median Q scores per cycle greater than 25 | 1% |
| Ambiguous content (% N bases) | 0% |
| Assembly Quality Control | |
|---|---|
| Estimated genome completeness | 99.19% |
| Estimated genome contamination | 0% |
| Illumina depth of coverage | 505.917× |
| ONT depth of coverage | 188.084× |
Notes
This bacterium was assembled, annotated, and curated using Oatmeal v1.2. See our technical documentation for further details: https://docs.onecodex.com/en/articles/5357065-assembly-qc-and-annotation-pipeline-versions
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