Our method extends AnchorWave to support multiple sequence alignment (MSA),
enabling the identification of conserved regions across multiple sequences while
maintaining computational efficiency. By leveraging an anchor-based approach, it
minimizes the computational overhead typically associated with MSA, making it
suitable for large-scale genomic studies. The implementation is optimized to run
on low-capacity resources, ensuring accessibility for researchers working with
limited computational power. This extension provides a practical and scalable
solution for comparative genomics, particularly in analyzing plant genomes, which
often contain complex structural variations and repetitive regions.