NEW: View our new taxonomic tree view of all microbial products!
Purchased a product from ATCC? Enter in the lot number to download the omics data or learn more about our supporting memberships here.
Purchased a product from ATCC? Enter in the lot number to download the omics data or learn more about our supporting memberships here.
Overview
Genome Browser
Related Genomes
Quality Control
Organism Summary | |
|---|---|
| Catalog Number | ATCC® TSD-582™ |
| Strain Alias | TPC_1 |
| Isolation | Freshwater stream |
| Tags | Type Strain |
| Biosafety Level | 1 |
| Type Strain | Yes |
Assembly Summary | |
|---|---|
| Date Published | December 12, 2025 |
| Length | 6,287,768 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 1 (All Circularized) |
| N50 | 6,287,768 nt |
| %GC | 63.06% |
Annotations Summary | |
|---|---|
| Number of CDS | 5490 |
| Number of Hypothetical Proteins | 700 |
| Number of tRNA | 92 |
| Number of 5s rRNA | 9 |
| Number of 16s rRNA | 8 |
| Number of 23s rRNA | 8 |
Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 38,439 |
| Oxford Nanopore Median Q Score | 42 |
| Illumina Read Count | 11,578,250 |
| Illumina Mean Coverage Depth | 273.121× |
| Illumina Median Q Score | 40 |
| 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 | 11,578,250 |
| Median Q score, all bases | 40 |
| 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 | 99.5% |
| Estimated genome contamination | 5.47% |
| Illumina depth of coverage | 273.121× |
| ONT depth of coverage | 97.318× |
Notes
This bacterium was assembled, 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. CheckM contamination metric has been omitted from publication QC criteria for this item due to its rarity in the CheckM database as a type strain deposit.
This website uses cookies to ensure you get the best experience on our website. Learn moreDecline