category: Sequence - Multiple Alignment

programs:

• blnalign - biolegato interface for working with multiple DNA/RNA alignments
• blpalign - biolegato interface for working with multiple protein alignments
• clu2ig - Translate multiply aligned sequences in clustal format to Intelligenetics format
• clustalo - Multiple sequence alignment
• dialign-tx - segment-based multiple alignment
• Gblocks - Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
• Gblocks.py - Wrapper to run Gblocks from BioLegato
• Jalview - Multiple alignment viewer
• mafft - Multiple sequence alignment by fast Fourier Transformation
• MakeCons - Create a consensus sequence from a multiple alignment
• maxalign - Maximizing the size of gap-free columns by selecting an optimal subset of sequences in an alignment
• mrtrans - Align DNA sequences to a protein multiple alignment
• pal2nal.pl - align DNA to a protein alignment
• reform - print a multiple alignment using plain text