Sentence examples for building the alignment from inspiring English sources

The main idea is to start building the alignment from an initial AFP and to add AFPs to the alignment.

This structural alignment was then used as reference when building the alignment used for phylogenetic analyses in MEGA4 [ 49].

The sequences to be used in building the alignment template are assembled from the result of a k-mer sequence search on the reference MSA.

The correctly folded secondary structure is fundamental not only for improving the alignment [ 43- 48], but also for building the alignment itself (especially in case of variable markers such as ITS2) as well as for identifying and detecting synapomorphies.

The Controller part ensures the communication between the Model and the View and is implemented by different Cytoscape Task classes, one for each process performed by GASOLINE (i.e. checking file format, computing alignments, importing networks, protein description and GO annotations, building the alignment graphs).

Following building the profile alignment for group I and group II separately, the two aligned profiles were merged using profile alignment option from ClustalX.

For calculations on triplet matrix, d equals 2. During building the local alignment, we determine the maximal value of the similarity function F coordinates (i m, j m ) corresponding to this maximal value.

The full length of a query sequence is used for building the multiple sequence alignment (MSA), with a cutoff e-value of 0.0001 and a maximum retrieval of 5,000 sequences for each query process.

Building the ancestral orthologous alignments of sp1 and sp2 is formulated as a maximum-weight bipartite matching problem, namely: given G, find a matching M, which maximizes the sum of the weights of the edges that belong to M. We use an efficient algorithm for solving the maximum-weight bipartite matching problem (Johnson and McGeoch 1993).

Building the ancestral orthologous alignments of sp1 and sp2 is formulated as a maximum-weight bipartite matching problem, namely: given G, find a matching M, which maximizes the sum of the weights of the edges that belong to M. Problem 1. Suppose L has nl match regions and R has n r match regions.

The program reads the sequence and quality data in Fasta or GDE format, considers clone sizes and performs multiple alignments, building the consensus sequence and reporting polymorphisms of the sequence.