It was observed that the drainage effectiveness and efficiency were significantly influenced by local geological settings, borehole horizontal and vertical placement, branching, and water filling.
For the bootstrap replicates, heuristics are deployed that only assess the top 10% most promising placement branches as computed on the original (non-bootstrapped) alignment and thereby reduce run times for bootstrap placements by one order of magnitude.
Upon further inspection, we found that cell plate placement at branch sites is often affected.
The importance of tree depth may depend not only on the relative placement of branches in the tree, but also on overall branch lengths (with mtDNA being more problematic when branches are generally longer).
It is clear that the precise placement of branches affects material properties.
The resulting tree was found to be well supported (>80% bootstrap) with the exception of the placement of branches neighboring the central L. monocytogenes junction, implying early indels and recombination that lead to inconsistent topologies.
Lineage III contains serotypes 4a and 4c, lineage II includes 1/2a, 1/2c, 3a and 3c and lineage I bears strains of serotypes 1/2b, 3b, 4b, 4d, 4e and 7. Differentiation leading to separate serotypes apparently had little impact on the placement of branches apart from the general lineage.
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For example, the monophyly of M18'38 or the actual placement of the branch referred to as M4a within M4 has been confirmed.
Sparse taxon sampling, as opposed to uneven taxon sampling, may have resulted in greater uncertainty of branch placement for less represented genotypes, such as genotype 5, for which only 2 full-length sequences were available.
