Sentence examples for using the same alignment from inspiring English sources

However, in the final version, Route 31 ran via Hamburg, using the same alignment as a planned spur of pre-1927 Route 8 from Lafayette to North Church.

The potential HGT acquisition time was estimated by BEAST v1.6.1 using the same alignment.

These reads were instead extracted and used for de novo assembly with gsAssembler, using the same alignment paramaters.

In addition to the NJ-tree a quartet-puzzling tree was constructed with Treepuzzle 5.2 [ 118] using the same alignment.

Protein parsimony trees were made using the same alignment with the Phylogenetic Analysis Using Parsimony software package (PAUP* version 4.0) [ 41].

Similarly, new sequencing primers were constructed using the same alignment (sequences of PCR primers and sequencing primers for rbcL are listed in Additional file 2).

As for the primate mitochondrial genomes, we calculated distance matrices using the same alignment-free methods, constructed trees with Neighbor-Joining and compared the resulting tree topologies to a benchmark tree using the RF metric.

Using the same alignments, we also reconstructed the phylogeny using MrBayes 3.2 (Ronquist et al. 2012, Jones model).

Interspecific ω values are calculated with KaKs_Calculator using the same alignments as MKT; species-specific ω values are calculated with codeml using four-species alignments.

Using the same alignments, we evaluated the scores we wanted to test, including a Blosum62 sums-of-pairs, a Pam250 sums-of-pairs, the CAO score (one for each structure) and the STRIKE score.

Our solvent accessibility predictions were then compared to the actual burying level and to the burying state predicted through PHD using the same alignments, in a standard 9%36%% three-state model (exposed, intermediate, buried).