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Oligo Thermo Analyzer

Calculate melting temperature and analyze properties of DNA/RNA oligonucleotides

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About This Tool

The Oligo Analyzer Thermo tool calculates the melting temperature (Tm) of DNA or RNA oligonucleotides using the nearest-neighbor thermodynamic method. It also computes GC content, molecular weight, extinction coefficient, and other essential properties for molecular biology research. Enter your sequence, adjust temperature, salt concentration, and oligo concentration parameters to get accurate results for primer design, probe selection, and PCR optimization.
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How to Use

  1. Enter your DNA or RNA sequence in the text area (uppercase letters A, T, C, G for DNA; A, U, C, G for RNA)
  2. Adjust the temperature parameter (default 25°C)
  3. Set the salt concentration (default 50 mM)
  4. Enter the oligo concentration (default
  5. 25 μM)
  6. Click the 'Calculate Properties' button
  7. View detailed results including melting temperature, GC content, molecular weight, and extinction coefficient
How to use oligo analyzer thermo

Frequently Asked Questions

Find Quick Answers

What method does this tool use for melting temperature calculation?
This tool uses the nearest-neighbor thermodynamic method with SantaLucia parameters for DNA and Sugimoto parameters for RNA, which provides more accurate results than simple Wallace rule calculations.
What sequence formats are supported?
The tool accepts plain DNA sequences (A, T, C, G) or RNA sequences (A, U, C, G). Uppercase letters are recommended. Non-standard characters will be filtered out automatically.
How accurate are the calculations?
The calculations use published thermodynamic parameters and account for salt concentration, oligo concentration, and temperature. Results are accurate for typical laboratory conditions but should be verified experimentally for critical applications.
Can I analyze modified nucleotides?
This tool currently supports standard DNA and RNA nucleotides only. Modified nucleotides may require specialized calculations not implemented in this version.

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