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Overview
Genome Browser
Related Genomes
Quality Control
Organism Summary | |
|---|---|
| Catalog Number | ATCC® BAA-111™ |
| Strain Alias | TGA [DSM 14008] |
| Isolation | Soil from the root system of Tagetes minuta |
| Tags | Methylation DataType Strain |
| Biosafety Level | 1 |
| Type Strain | Yes |
Assembly Summary | |
|---|---|
| Date Published | February 1, 2024 |
| Length | 4,839,719 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 6 (0 Circularized) |
| N50 | 2,615,135 nt |
| %GC | 63.06% |
Annotations Summary | |
|---|---|
| Number of CDS | 4661 |
| Number of Hypothetical Proteins | 888 |
| Number of tRNA | 92 |
| Number of 5s rRNA | 5 |
| Number of 16s rRNA | 5 |
| Number of 23s rRNA | 5 |
Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 660,100 |
| Oxford Nanopore Median Q Score | 26 |
| Illumina Read Count | 10,826,274 |
| Illumina Mean Coverage Depth | 329.601× |
| 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 Microbes
| Taxonomic Name | ATCC Product Page | Strain Alias | Tags | Date Published | Length |
|---|
Displaying Product
Sequencing Quality Control
Sequencing Quality Control Metrics | |
|---|---|
| Number of trimmed reads | 10,826,274 |
| 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 | 99.68% |
| Estimated genome contamination | 0.7% |
| Illumina depth of coverage | 329.601× |
| ONT depth of coverage | 919.81× |
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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