You can export sequences and alignments to classic MegAlign, where you may realign using a different method, perform bootstrapping, or view alignment reports.
| Timing | Command | Notes |
|---|---|---|
| Before performing an alignment | File > Send Sequences to MegAlign | Creates and opens a new MegAlign project containing the same sequences and sequence order as in the MegAlign Pro project. |
| After performing an alignment | File > Send Aligned Sequences to MegAlign | Sequences retain their MegAlign Pro alignment. |
| After performing an alignment and selecting a portion of the consensus | File > Send Aligned Subsequences to MegAlign | Sequences retain their MegAlign Pro alignment. |
| After performing a Mauve alignment and selecting an alignment block in the Overview | File > Send Active Block to MegAlign | Exports only the sequences in the active block. |
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