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added section Change Reference Structure
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source/web-app/poet/generate-sequences.rst

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@@ -110,14 +110,20 @@ Once the structure prediction job completes, the structure viewer will appear on
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- **pLDDT (predicted Local Distance Difference Test)**: A per-residue confidence score (commonly scaled from 0–100 or 0.0–1.0) indicating how reliable each residue's predicted position is.
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- **RMSD (Root Mean Square Deviation)**: A measure of structural similarity between two molecules, typically comparing backbone atoms.
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Lower RMSD values indicate greater structural similarity.
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- **RMSD (Root Mean Square Deviation)**: A measure of structural similarity between two molecules, typically comparing backbone atoms. Lower RMSD values indicate greater structural similarity.
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Click a sequence to expand the structure viewer, which will overlay the results table. In this view, you can examine detailed metrics and sequence-to-prompt alignment for the selected sequence.
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.. image:: ../../_static/tools/poet/results-table-expanded.png
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:alt: Sequence structure viewer
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**Change Reference Structure**
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By default, the query structure is used as the reference structure for structural comparisons. You can change it by selecting an alternative structure via the **Edit Reference Sequence** button, accessible from the results table **Settings** in the results table.
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.. image:: ../../_static/tools/poet/results-table-ref-structure.png
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:alt: Change reference structure
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Fine-tuning your results
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