Engineering indel and substitution variants of diverse and ancient enzymes using Graphical Representation of Ancestral Sequence Predictions (GRASP)
Fig 2
Results of indel evaluation of each of GRASP’s indel methods across 1) simulated data where the correct alignment and correct tree are supplied and 2) simulated data where a realigned alignment and correct tree are supplied across four indel rates (0.001, 0.005, 0.01, 0.03) and four taxon sizes (100, 250, 500, 750).
A, Number of correct indels identified by each method for each taxon size for each indel rate (N = 5). B, Number of indels uniformly identified by all methods or uniformly missed by all methods for each taxon size for each indel rate (N = 5). C, Number of indels uniquely identified by each indel method at four taxon sizes at indel rate 0.03, organised by indel type and size (N = 5).