RAxML [ 76] with PROTCAT setting, Dayhoff amino acid substitution model and 1000 bootstrap replications was run on super-aligned sequences for construction of phylogenetic tree.
To distinguish statistical differences in respective log-likelihoods of hybrid assignments, a paired t-test (10 bootstrap replications) was run in SPSS 20.0.
500 bootstrap replicates were run to estimate branch support.
Given the small number of cases, a bootstrap with 200 replications was run to assess the reliability of the effect of the significant variables.
For ML analyses 1000 bootstrap replicates were ran.
For each data set, 1000 bootstrap replications were used, resulting in a bootstrap percentile confidence interval for the AMA.
Bootstrap re-sampling was conducted stratified by gastroenterologist; 1,000 bootstrap replications were performed.
The number of bootstrap replications was fixed at 1000.
A consensus tree following 1000 bootstrap replications are shown.
In the bootstrap estimation 1000 bootstrap replications are used to produce the bootstrap distribution of PR.
