> For the complete documentation index, see [llms.txt](https://docs.kernel.asimov.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://docs.kernel.asimov.com/tools/secure-dna.md).

# SecureDNA Scanner

Screen sequences for biosecurity concerns using the SecureDNA service.

## What is SecureDNA?

SecureDNA is a biosecurity screening system that:

* Checks sequences against hazard databases
* Identifies potentially dangerous sequences
* Supports responsible genetic engineering
* Required by many synthesis providers

## Running a Screen

### From Tools

1. Click **Tools** in the sidebar
2. Select **SecureDNA Scanner**
3. Enter or paste sequence
4. Click **Screen**

## Understanding Results

### Clear Result

Your sequence passed screening:

* No hazardous sequences detected
* Safe to proceed with synthesis
* Keep results for records

### Flagged Result

Potential concern detected:

* Review the flagged region
* Understand why it was flagged
* May need modification or justification

### Result Categories

| Category | Meaning         |
| -------- | --------------- |
| Pass     | No concerns     |
| Flag     | Requires review |
| Block    | Cannot proceed  |

## Working with Flagged Sequences

### Review Details

1. Click on flagged result
2. See specific concern
3. View flagged sequence region

### Common Causes

* Toxin-encoding sequences
* Pathogen genes
* Virulence factors
* Dual-use research concern genes

### Resolution Options

1. **Modify sequence**: Remove or alter problematic region
2. **Provide justification**: Document legitimate research purpose
3. **Contact support**: Get guidance on compliance

## Best Practices

### Regular Screening

* Screen all constructs before synthesis
* Re-screen after modifications
* Keep screening records

### Design Considerations

* Be aware of hazardous sequences
* Consider alternatives for flagged regions
* Document research justification

### Compliance

* Follow institutional biosafety guidelines
* Maintain screening documentation
* Report concerns appropriately

## Troubleshooting

### Screening Fails

* Check sequence validity
* Verify internet connection
* Try again later

### Unexpected Flag

* Review the specific concern
* Check for sequence accuracy
* Contact support if unclear

## Resources

* [SecureDNA website](https://securedna.org)
* Institutional Biosafety Committee
* Kernel support for screening questions

## Next Steps

* [BLAST Search](/tools/blast.md) — Sequence similarity
* [Export Options](/tools/export.md) — Export with certificates
* [Creating Constructs](/constructs/creating-constructs.md) — Design safe constructs