Some transpositions have been artful, as with Stephen Sondheim's musical "A Little Night Music," from Ingmar Bergman's "Smiles of a Summer Night".
Still, in some instances transposition could explain rearranged gene orders with fewer steps than multiple inversions and so we hypothesized transposition events in some cases.
Even though the above scenario leading to GIR1 evolution seems to be the most relevant, we cannot rule out that some unknown transposition events could have taken place at the RNA level with subsequent transfer to the DNA level by reverse transcription and integration into the genome or by the recently described RNA-directed DNA repair mechanism (Storici et al, 2007).
We discovered that when we were preparing Figure 1 source data 5 we transposed some lines of data from Figure 1 source data 3. Thus, because of the transposition, some p-values in Figure 1 source data 5 were calculated incorrectly (a side-by-side comparison is shown in Supplementary file 1, file held on figshare under http://dx.doi.org/10.6084/m9.figshare.org/10.6084/m9.figshare
There is always some element of transposition in choreography: dances must be moved from the studio to the stage, and adjusted as they go, a transition to which smart artists are keenly attuned.
During transposition some ISs create direct repeats, or target site duplications, in the sequences into which they are integrating.
The above algorithm is heuristic because in some cases, a transposition at the current step that does not reduce the most number of breakpoints may result in better choices later.
In some cases, after transposition of the flaps, a minimal dog-ear formation has been observed at one end of the flap, but it was too small to require excision and was resolved by time.
As these capture events were duplicated via transposition, some portions of the capture event were lost from template copies, resulting in helitrons that retain different portions of the same gene capture event.
