Sentence examples for bootstrap replicates were constructed from inspiring English sources

Maximum-Likelihood based trees and 100 bootstrap replicates were constructed using PhyML [67].

Neighbour joining (NJ) phylogenetic trees, with 1000 bootstrap replicates, were constructed using MEGA5.2.2 [ 43].

ML topologies with 1,000 bootstrap replicates were constructed with PHYML 3.0 [ 45] and Bayesian phylogenetic reconstructions were carried out as previously described.

Neighbor-joining trees (with 500 bootstrap replicates) were constructed with PHYLIP [ 8] using amino acid sequences and simple Poisson-corrected substitution models (λ = 1).

For this, protein sequences alignment was performed using the MUSCLE program [ 77], and maximum likelihood trees with 100 bootstrap replicates were constructed with the PHYML program [ 78, 79] and the JTT amino acid substitution model.

Neighboring joining trees (with 500 bootstrap replicates) were constructed using MEGA3 [ 65, 66] by using a substitution model of Amino: Poisson correction with Gamma Distributed Rates among sites (Gamma Parameter 2.0) and including sites with a pairwise deletion of Gaps/Missing data.

A bootstrapped phylogenetic tree (with 1000 bootstrap replicates) was constructed for the avian influenza H7 HA1 coding region using maximum likelihood inference in the PhyML software [ 90].

Sequence alignment was conducted using ClustalW, and a maximum-likelihood tree with 100 bootstrap replicates was constructed using MEGA version 4.0 (Tamura et al., 2007).

A maximum parsimony tree with branch confidence values based on 1000 bootstrap replicates was constructed.

A maximum parsimony tree with branch confidence values based on 500 bootstrap replicates was constructed and the tree drawn in TreeViewPPC version 1.6.6 –.

A neighbour-joining tree following 1000 bootstrap replicates was constructed using MrBayes v3.22 [ 47] and plotted with FigTree (v1.4; http://tree.bio.ed.ac.uk/software/figtree/).ac.uk/software/figtree/