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MADS box gene & protein sequence alignments

The alignments linked from this page were computed from the protein sequences listed in the MADS box gene list using the GCG program pileup. The MADS box in the protein sequences was found with the GCG program findpatterns and pattern files matching the MADS domain starting from position 11, position 21, and position 43. The MIK domain was found with the MIK pattern. The alignments were formatted with the GCG program pretty. Gaps are denoted by dots (internal gaps) or tilde characters ("~", terminal gaps). Consensus sequences are displayed at the bottom line. Only amino acid characters deviating from the consensus amino acid are explicitly shown, those matching the consensus are displayed as dashes ("-"). Here are the links to the alignments:
Home Alignments Phylogeny

Jan T. Kim (kim@mpiz-koeln.mpg.de)