Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, enabling assessment of downstream analyses such as trees and predicted structures.
To align a pair of sequences of length L, muscle requires at least 5 x L^2 bytes of memory
The upper limit on L is currently a bit less than 30,000 letters. Unfortunately, this is close to the length of a Cov-2 genome, and an attempt to align Cov-2 genomes with muscle usually fails for this reason.
Currently, muscle segfaults if this limit is exceeded, this is a bug, it should give a graceful error message and exit.
To align a pair of sequences of length L, muscle requires at least 5 x L^2 bytes of memory
The upper limit on L is currently a bit less than 30,000 letters. Unfortunately, this is close to the length of a Cov-2 genome, and an attempt to align Cov-2 genomes with muscle usually fails for this reason.
Currently, muscle segfaults if this limit is exceeded, this is a bug, it should give a graceful error message and exit.