## Display a multiple sequence alignment as formatted text

### Description

Display a multiple sequence alignment in pretty format

This tool runs EMBOSS command showalign that reads a set of aligned protein or a nucleic acid sequences, and writes them to file in formatted text file. Similarities and differences of each sequence to a reference sequence are highlighted for specified types of matches. The reference sequence can be the calculated consensus sequence (default) or one of the input set (specified by name or the ordinal number of that sequence in the file). The output sequences can be displayed in either the input order (the default), sorted in order of their similarity to the reference sequence, or sorted alphabetically by their names. There are many other options to control the content and format of the output.

The input sequences can be in any of the EMBOSS compatible sequence alignment formats. Note that this tool reads just one input file, that should contain all the sequences to be analyzed.

For more details, please check the manual pages of showalign command.

### Output

Output is a fasta formatted sequence file.