The histogram in Figure 8a shows the distribution of Hamming distances of 17,820 comparisons between genuine and impostors' keys.
These metrics, however, depend on the evolutionary distance of the comparison, and for non-model species often require annotation against distant relatives where orthologs may have been duplicated, lost, or undergone changes in size.
APPLES requires finding organisms of a specified relational distance for comparison, which can burden the user, and MEME has the statistical risk of discarding actual existing motifs.
The masked image was then passed to the GLCM texture plugin, which had been modified so that it could be operated in a nested loop for varying pixel comparison distances and alternative directions of comparison.
In addition, monocot-to- Arabidopsis mapping showed a lower mapping ratio compared with dicot-to-rice/maize mapping, although evolutionary distances of these two comparisons were same.
The NAD C4N– or C6N 203 CA distances allow comparison of these enzymes and show the relative movement of the nicotinamide ring.
To capture the performance of solutions for sequential diversification during a data exploration session, we define the following metrics: Diversification cost, (C(S_i)), is defined as the processing cost, in terms of number of distance and comparison operations, required to process a result (X_i) to produce a diversified result (S_i) of size k.
The possible close relationship of these two groups of GIY-YIG nucleases will be confirmed when the crystal structure of a GIY-YIG REase is determined, enabling quantitative assessment of the evolutionary distance by comparison of atomic coordinates, similarly to the study previously carried out for the nucleases from the PD-(D/E xK superfamily [ 55, 56].
While hamming distance is defined as the number of positions for which the corresponding characters of two words of the same length differ, edit distance allows the comparison of different length words and accounts for three edit operations (insert, delete and substitute), rather than the plain mismatch (corresponds to substitute) employed by the hamming distance.
In each case, different footing distances were applied for the purposes of comparison among all of the results.
