As of May 2024, to guarantee the long-term sustainability of the portal and to continue to provide you with reference-quality genomes, we have transitioned the ATCC Genome Portal over to a supporting membership service. Learn more about ATCC supporting memberships here.
Overview
Genome Browser
Related Genomes
Quality Control
| Assembly Summary | |
|---|---|
| Date Published | November 30, 2023 |
| Length | 5,763,091 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 2 (All Circularized) |
| Assembly Level | Complete |
| N50 | 5,702,025 nt |
| %GC | 45.85% |
| Organism Summary | |
|---|---|
| Name | ATCC® 43991™ |
| Isolation | Digestive tract of amphipod, Scopelocheirus shellengi, from Puerto Rico Trench |
| Biosafety Level | 1 |
| Type Strain | No |
| Annotations Summary | |
|---|---|
| Number of CDS | 4,712 |
| Number of Hypothetical Proteins | 593 |
| Number of tRNA | 121 |
| Number of 5s rRNA | 13 |
| Number of 16s rRNA | 12 |
| Number of 23s rRNA | 12 |
| Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 96,254 |
| Oxford Nanopore Median Q Score | 26 |
| Illumina Read Count | 13,224,820 |
| Illumina Mean Coverage Depth | 339.012× |
| 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 reads13,224,820
PassedMedian Q score, all bases34
PassedPercent of median Q scores per cycle greater than 25100%
PassedAmbiguous content (% N bases)0.01%
Assembly Quality Control
Metrics assessing the assembly quality
3 out of 3 passed
PassedEstimated genome completeness99.77%
PassedEstimated genome contamination0.35%
PassedAverage depth of coverage339.012×
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
This website uses cookies to ensure you get the best experience on our website. Learn moreDecline