Sentence examples for underlying alignment from inspiring English sources

They could choose underlying alignment tool, which chromosome to align, and how many mismatches allowed according to query characteristics.

Fourth, SiPhy, like other existing methods, heavily depends on the underlying alignment.

The underlying alignment method computes alignments with a worst-case bound on their quality.

Such methods heavily depend on the sequence conservation and quality of the underlying alignment.

The underlying alignment scoring scheme is the general reversible model [ 21]: where Q is the transition rate matrix.

The phylogenetic tree (ORs) and underlying alignment file have been deposited at LabArchives (http://www.labarchives.com): DOI 10.6070/H4251G56.

The network topology in Fig. 6A and 6B indicates that the ECH domain in the archaeal bifunctional proteins is more similar to the sECH ECH domain than either of these two domains is to the ECH in the other bifunctional protein cluster; a look at the underlying alignments indicates that the domain ordering between archaeal and non-archaeal bECH sequences has been reversed (Fig. 5D, Fig. 6C).

In all these applications, the reliability and accuracy of the analyses depend critically on the quality of the underlying alignments.

To investigate the reasons for the occurrence of these rather distinct tree topologies, we analysed the underlying alignments.

This showed clearly that the instabilities and inconsistencies of the safe branches can be traced back to the underlying alignments.

In view of their rather restrictive definition, it was natural to guess that that instabilities of safe branches indicate instabilities of the underlying alignments.