Figure 3
From: Fast and robust multiple sequence alignment with phylogeny-aware gap placement
Quality on simulated data set. On a simulated data set MSA programs are evaluated by means of three different pair-wise and column-wise alignment error statistics as well as relative error in alignment length. In terms of alignment accuracy on simulated data, ProGraphMSA adopts a position in the midfield after MSA tools with iterative refinement. Surprisingly, Prank has the strongest bias in alignment length, probably due to using p-distances and thus not detecting distant homologies, while ProGraphMSA's results are closest to the reference alignment lengths.