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Analysis of variance (ANOVA) between clusters was calculated using the Kruskal-Wallis test with Dunn's post-test analysis.
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Distances between clusters were calculated using the 'complete linkage' method.
The amalgamation rule used was complete linkage and distances between clusters were calculated according to Euclidean distances.
The difference between clusters is calculated by the equation: d (a, b ) = n a n b n a + n b (x a − x b ) 2 SS conceived this study, performed the biochemical- and the computational experiments, and wrote the manuscript.
(The UPGMA used because the distance between two clusters was calculated as the average distance between all pairs of objects in two different clusters).
Correlation of transcription factor composition between two types of clusters was calculated in the following way.
The genetic distance for the Cytb sequences between the two major clusters was calculated as 2.9 % on average.
FST between the Hondo and Ryukyu clusters was calculated using smartpca (version 6.0.1), as described elsewhere55.
The correlation between the Jaccard's similarity and the cophenetic coefficients for the clusters was calculated.
In the complete linkage the distances between two clusters are calculated as the maximum distance between any object in the first and any object in the second cluster.
The average distance between two clusters is calculated as the average RMSD, computed on the whole complex, between every pair of solutions taken from the two clusters.
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