Gap statistics. Summary statistics for indel events reconstructed from ancestral sequence alignments produced by four variants of Prank and ProGraphMSA. In particular we evaluate the relative number of indel events, the insertion/deletion ratio, the length of the reconstructed MSAs relative to the reference alignments, and the fraction of correctly inferred indel events. An indel event is defined to be correct, if it starts at the correct column, has the right length, and has been placed on the correct branch of the guide tree.
Szalkowski BMC Bioinformatics 2012 13:129 doi:10.1186/1471-2105-13-129