Input
Jalview can read alignment files in any of the following formats:
Fasta , MSF, Clustal, BLC, PIR, MSP, PFAM
Use the menu at the top of the main application window to read in files from
If a file is of an unknown format or there is any other error reading the alignment file you will be given an error message, the alignment will not be read in.
Output
Each alignment, whether it is the original or an edited version may be saved in the formats
Fasta , MSF, Clustal, BLC, PIR, MSP, PFAM
The alignment may also be saved as a HTML web page.
You may save a jpg image of your alignment.
The alignment can be printed from a local printer.