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Both sets of sequences gave similar results, but the less conserved C-terminal part of the protein induced a higher uncertainty reflected by lower bootstrap values.
These outliers in the VP4-based analysis are very closely related to the B1 cluster, and this discrepancy probably results from the lower discriminating power obtained when using the VP4 gene for this analysis, as evidenced by lower bootstrap values at the major nodes.
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However, relatively lower bootstrap values were observed in N1 and N2 clades.
Types I and IV have lower bootstrap values, respectively 50 and 39.
Groups 4 and 5 are supported by high bootstrap values; group 6 has a lower bootstrap value.
As expected, relatively lower bootstraps values were obtained (Additional file 6).
This would lead to unnatural groups being highly supported by bootstrap, whereas sometimes lowering bootstrap support values in other parts of the tree.
A common ancestry of mammalian and avian CENP-A proteins (to some extent also of lower vertebrate and non-vertebrate CENP-As; clade marked by red rhomb in Figure 2A) was supported by high bootstrap values.
According to our result, these two main sub-families were well supported by high bootstrap values.
All these groups are strongly supported by high bootstrap values ranging from 97 to 100%.
Chlorophyta sequences were divided into four lineages supported by high bootstrap values.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com