Sentence examples for native alignment from inspiring English sources

In the third case, we shuffled the native alignment at each position while keeping the gap pattern as in the native alignment.

The benchmark experiment was PSI-BLAST seeded with the native alignment (N sequences).

After shuffling, we added N-1 sequences resulted from the shuffling to the native alignment.

However, sequences generated by shuffling each position of the native alignment have the same conservation properties as the native alignment, and the "SHUFFLE" method detects a total of 74 new homologs.

The idea is to test whether adding more sequences to a native alignment can help homology detection.

In the fourth case, N-1 random sequences were generated with the overall amino acid frequencies of the native alignment.

Random sequences can dilute the position-specific amino acid exchange characteristics of native alignments.

Using the 48 native alignments, a total of 13973 hits were found by the benchmark.

For each type of the four combined alignments, we checked hits not found by the native alignments.

Next, we used the Hicks dataset to benchmark FATHMM against four other computational prediction algorithms (using their native alignments) [Adzhubei et al., 2010; Ng and Henikoff, 2001; Reva et al., 2011; Tavtigian et al., 2006] (Table 3).

Additionally, it allows preservation of the native articular alignment.