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Overview
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Quality Control
Organism Summary | |
|---|---|
| Catalog Number | ATCC® 25874™ |
| Strain Alias | 123 NAG |
| Isolation | Patient with clinical cholera |
| Tags | Methylation Data |
| Biosafety Level | 2 |
| Type Strain | No |
Assembly Summary | |
|---|---|
| Date Published | June 3, 2024 |
| Length | 4,046,374 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 3 (All Circularized) |
| N50 | 2,930,945 nt |
| %GC | 47.48% |
Annotations Summary | |
|---|---|
| Number of CDS | 3584 |
| Number of Hypothetical Proteins | 223 |
| Number of tRNA | 96 |
| Number of 5s rRNA | 11 |
| Number of 16s rRNA | 10 |
| Number of 23s rRNA | 10 |
Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 50,958 |
| Oxford Nanopore Median Q Score | 31 |
| Illumina Read Count | 31,440,092 |
| Illumina Mean Coverage Depth | 1,140.906× |
| 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):
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| Taxonomic Name | ATCC Product Page | Strain Alias | Tags | Date Published | Length |
|---|
Displaying Genome
Sequencing Quality Control
Sequencing Quality Control Metrics | |
|---|---|
| Number of trimmed reads | 31,440,092 |
| 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
Assembly Quality Control Metrics | |
|---|---|
| Estimated genome completeness | 99.29% |
| Estimated genome contamination | 0.44% |
| Illumina depth of coverage | 1,140.906× |
| ONT depth of coverage | 84.847× |
Notes
This bacterium was assembled, annotated, and curated using Oatmeal v2.0. See our technical documentation for further details: https://docs.onecodex.com/en/articles/5357065-assembly-qc-and-annotation-pipeline-versions
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