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What is the multi-sequence alignment tool kalign suitable for genome scale? I believe that many inexperienced people are at a loss about it. Therefore, this paper summarizes the causes and solutions of the problem. Through this article, I hope you can solve this problem.

Clustalo, muscle and mafft mentioned earlier are suitable for multi-sequence alignment of thousands to tens of thousands of sequences. in the analysis of comparative genomics, multiple sequence alignments of different genomes are needed. For genome-scale multiple sequence alignments, the previous tools are not ideal in terms of speed.

Kalign is a multi-sequence alignment tool for large-scale sequences, both in terms of running speed and alignment accuracy.

In the corresponding literature, the running speed of different software and the accuracy of multi-sequence alignment are evaluated by using the test data set. The results are as follows.

In terms of speed, Kalign is far ahead, from accuracy to up, the accuracy of kalign and muscle, mafft is very close.

Kalign supports multiple sequence alignment of nucleic acids and proteins. The installation process of the software is as follows.

Wget http://msa.sbc.su.se/downloads/kalign/current.tar.gztar xzvf current.tar.gz./configuremake

The name of the compiled executable file is kalign, and the basic usage is as follows

Kalign input.fa > out.fa

Output multiple sequence alignment results in fasta format by default, and also support clustalw, msf and other formats.

After reading the above, have you mastered the method of kalign, a multi-sequence alignment tool suitable for genome scale? If you want to learn more skills or want to know more about it, you are welcome to follow the industry information channel, thank you for reading!

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