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Overview
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Quality Control
Organism Summary | |
|---|---|
| Catalog Number | ATCC® TSD-310™ |
| Strain Alias | 186855 |
| Isolation | Ear canal of Cricetomys ansorgei |
| Tags | Methylation DataType Strain |
| Biosafety Level | 2 |
| Type Strain | Yes |
Assembly Summary | |
|---|---|
| Date Published | June 1, 2023 |
| Length | 2,707,859 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 1 (All Circularized) |
| N50 | 2,707,859 nt |
| %GC | 72.64% |
Annotations Summary | |
|---|---|
| Number of CDS | 2255 |
| Number of Hypothetical Proteins | 176 |
| Number of tRNA | 51 |
| Number of 5s rRNA | 3 |
| Number of 16s rRNA | 3 |
| Number of 23s rRNA | 3 |
Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 570,626 |
| Oxford Nanopore Median Q Score | 23 |
| Illumina Read Count | 19,459,744 |
| Illumina Mean Coverage Depth | 1,052.46× |
| 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 Product
Sequencing Quality Control
Sequencing Quality Control Metrics | |
|---|---|
| Number of trimmed reads | 19,459,744 |
| 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 | 99.53% |
| Estimated genome contamination | 0% |
| Illumina depth of coverage | 1,052.46× |
| ONT depth of coverage | 1,992.758× |
Notes
This assembly was generated using Trycycler v0.5.4 and polished by Medaka v1.11.3, Polypolish v0.6.0, and pypolca v0.3.1. A combination of Flye v2.9.3-b1797, miniasm v0.3-r179, and raven v1.8.3 were used to generate the input assemblies. This bacterium was annotated and curated using Oatmeal v3.1. See our technical documentation for further details: https://docs.onecodex.com/en/articles/5357065-assembly-qc-and-annotation-pipeline-versions
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