Alignment-free analysis of barcode sequences by means of compression-based methods

BMC Bioinformatics

Table 8 Tree similarity score (mean and variance) among compression-based trees and evolutionary trees, obtained with NJ, of simulated datasets.

Simulated Dataset #sequences	Kimura		Tajima-Nei		Tamura		TamuraTamura-Nei		MCL
	NJ		NJ		NJ		NJ		NJ
	score	variance	score	variance	score	variance	score	variance	score	variance
100	0.83	4.12E-04	0.83	4.65E-04	0.84	4.77E-04	0.83	4.98E-04	0.83	3.49E-04
150	0.86	8.64E-04	0.86	4.45E-04	0.86	6.44E-04	0.86	4.94E-04	0.86	5.77E-04
200	0.85	1.22E-03	0.85	1.07E-03	0.85	1.23E-03	0.85	9.71E-04	0.84	1.65E-03
500	0.81	1.83E-04	0.81	2.19E-04	0.81	2.23E-04	0.81	2.01E-04	0.81	2.76E-04

PhyloCore similarity scores of the simulated datasets. According to the number of barcode sequences, each simulation was replicated 25-fold, for a total of 100 simulated dataset. The scores (mean and variance) are obtained comparing compression-based trees, using NCD, with evolutionary-based trees obtained through all five evolutionary models. The trees were generated using NJ algorithm.

ISSN: 1471-2105