Of the insertions that did affect syntaxin binding, Gln203, Leu410, Glu420 and Phe540 all likewise affected Mint binding (Figure 1).
Although RelocaTE may not find every insertion in a genome (particularly those in repetitive regions), the insertions that are identified are well supported due to the stringency of the requirements to call a TE insertion site.
The McDonald Kreitman test shows that 32 46% of the deletions and 60 73% of the insertions that were fixed in the recent evolution of D. melanogaster are adaptive, whereas this fraction is only 0 29% for single-nucleotide substitutions.
Thus, only the insertions that are unique to the TD sample, have sufficient coverage and close to no discordant reads at the corresponding locus in the ND sample are retained as somatic.
The insertions that specifically modified the longevity of Aβ-expressing flies, and not controls, were classified into 18 suppressor and three enhancer groups according to the identity of the neighbouring genes.
Di Giulio criticizes the alignment between EF-G and EF-Tu because there is a 4 residue stretch between the insertions that is more similar between some paralogs than between some orthologs [ 22].
Although the existence of the insertions that we are interested in is assumed to be fixed within the human population, sequence mutations have occurred within these insertions.
The insertions that we found in the course of our studies of the tub var chromosomes represent three distinct families of transposable elements, giving us examples of the complexity of genetic interactions that are possible among transposable elements.
