Sentence examples for its alignments from inspiring English sources

Although the Geoglossum clade was strongly supported in the trees based on the 5.8S anchored and 5.8S re-included ITS alignments (Fig. 4), it was not well supported in the trees based on other alignments.

To build these four alignments, we first used the ITS sequences of full length, including any fringe residues of 18S and 28S, to construct "whole ITS" alignments with both Clustal W and SATé.

ITS sequences are not as widely used as other rDNA regions and protein-coding genes for higher-level phylogenetic inference due to the high rates of evolution of the region; ITS alignments are typically difficult to extend beyond the genus or subfamily level [19].

Even so, the performance of SATé in generating large ITS alignments for an accurate estimation of a higher-level phylogeny was surprisingly good, especially since the relationships between the Pezizomycetes and the Orbiliomycetes, and among the earth tongues and the three lichenized groups, have been problematic even with multigene phylogenies (e.g. [25] [29] [30]).

Sixteen clades from the parsimony consensus tree inferred were selected as groups for the construction of ITS alignments.

The sequence similarity for the ITS1 and ITS2 regions was computed among the sequences in each of the ITS alignments.

A lower-scored whole ITS alignment was also examined (Alignment S3).

The 5.8S re-included ITS alignment featured 1,544 positions for 296 taxa (Alignment S5).

For the second approach, SATé returned a best-scored ITS alignment of 1,296 positions for 300 taxa (Alignment S2).

Additional file 1: ITS alignment.

A tree from the nuclear ITS alignment is almost unresolved (data not shown), but ITS sequences helped pinpoint suspected hybridization.