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- Mycobacterium avium
- Mycobacterium avium subsp. silvaticum
Mycobacterium avium subsp. silvaticum (ATCC® 49884™)
Overview
Genome Browser
Related Genomes
Quality Control
| Assembly Summary | |
|---|---|
| Date Published | February 1, 2024 |
| Length | 4,961,053 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 12 (0 Circularized) |
| Assembly Level | Chromosome |
| N50 | 1,358,294 nt |
| %GC | 69.3% |
| Organism Summary | |
|---|---|
| Name | ATCC® 49884™ |
| Isolation | Liver and spleen of wood pigeon (Columba palumbus) |
| Tags | Type Strain |
| Biosafety Level | 2 |
| Type Strain | Yes |
| Annotations Summary | |
|---|---|
| Number of CDS | 4,632 |
| Number of Hypothetical Proteins | 485 |
| Number of tRNA | 50 |
| Number of 5s rRNA | 1 |
| Number of 16s rRNA | 1 |
| Number of 23s rRNA | 1 |
| Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 20,000 |
| Oxford Nanopore Median Q Score | 25 |
| Illumina Read Count | 5,864,618 |
| Illumina Mean Coverage Depth | 164.49× |
| 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 reads5,864,618
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 completeness99.61%
PassedEstimated genome contamination1.67%
PassedAverage depth of coverage164.49×
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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