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Overview
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Quality Control
Organism Summary | |
|---|---|
| Catalog Number | ATCC® 25079™ |
| Strain Alias | D-17 |
| Isolation | Soil from Zion National Park |
| Tags | Methylation Data |
| Biosafety Level | 1 |
| Type Strain | No |
Assembly Summary | |
|---|---|
| Date Published | March 5, 2024 |
| Length | 5,374,574 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 7 (0 Circularized) |
| N50 | 1,509,605 nt |
| %GC | 74.24% |
Annotations Summary | |
|---|---|
| Number of CDS | 5098 |
| Number of Hypothetical Proteins | 814 |
| Number of tRNA | 47 |
| Number of 5s rRNA | 3 |
| Number of 16s rRNA | 3 |
| Number of 23s rRNA | 3 |
Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 143,156 |
| Oxford Nanopore Median Q Score | 23 |
| Illumina Read Count | 8,340,008 |
| Illumina Mean Coverage Depth | 224.761× |
| 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 | 8,340,008 |
| 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 | 97.31% |
| Estimated genome contamination | 2.77% |
| Illumina depth of coverage | 224.761× |
| ONT depth of coverage | 89.922× |
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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