Purchased a strain from ATCC? Enter in the lot number to download the genome or learn more about our supporting memberships here.
Overview
Genome Browser
Related Genomes
Quality Control
| Organism Summary | |
|---|---|
| Catalog Number | ATCC® 25082™ |
| Strain Alias | J1 [DSM 1902] |
| Isolation | Mud from duck pond |
| Tags | Methylation DataType Strain |
| Biosafety Level | 1 |
| Type Strain | Yes |
| Assembly Summary | |
|---|---|
| Date Published | June 3, 2024 |
| Length | 3,970,176 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 4 (0 Circularized) |
| N50 | 3,806,350 nt |
| %GC | 65.25% |
| Annotations Summary | |
|---|---|
| Number of CDS | 3663 |
| Number of Hypothetical Proteins | 669 |
| Number of tRNA | 48 |
| Number of 5s rRNA | 2 |
| Number of 16s rRNA | 2 |
| Number of 23s rRNA | 2 |
| Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 44,474 |
| Oxford Nanopore Median Q Score | 23 |
| Illumina Read Count | 10,226,660 |
| Illumina Mean Coverage Depth | 378.361× |
| 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 Genomes
| Taxonomic Name | ATCC Product Page | Strain Alias | Tags | Date Published | Length | Download |
|---|
Displaying Genome
| Sequencing Quality Control | |
|---|---|
| Number of trimmed reads | 10,226,660 |
| 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 | |
|---|---|
| Estimated genome completeness | 98.93% |
| Estimated genome contamination | 2.8% |
| Illumina depth of coverage | 378.361× |
| ONT depth of coverage | 196.597× |
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
This website uses cookies to ensure you get the best experience on our website. Learn moreDecline