Parallel progressive multiple sequence alignment on reconfigurable meshes. Nguyen K,Pan Y,Nong G. BMC Genetics . 2001Nguyen K,Pan Y,Nong G.Parallel progressive multiple sequence alignment on reconfigurable meshes.BMC Genetics. 2001Nong G: “Parallel progressive multiple sequence alignment on ...
its alignment with another sequence that is well characterized in both structure and function immediately reveals the structure and function of the first sequence. This ideal transfer of information is, unfortunately, not
The problem of simultaneously aligning a number of sequences is referred to as multiple sequence alignment. We provide a dynamic programming algorithm for multiple alignment which extends the dynamic programming algorithm for global pairwise alignment. We describe frequency based algorithms to align a se...
Sequence similarity search, multiple sequence alignment, model selection, distance matrix and phylogeny reconstruction. Nature Protocol Exchange, Published online 11 July 2013. http://dx.doi. org/10.1038/protex.2013.065.Bast F (2013) Sequence similarity search, multiple sequence alignment, model ...
We denote byxi ∈ {1, …, q} the state of sitei ∈ {1, …, L}, whereq = 21 is the number of possible states, namely the 20 natural amino acids and the alignment gap. A general Potts model Hamiltonian applied to a sequencex = (x1, …, xL) ...
We introduce the online server for PRALINE (http://ibium.cs.vu.nl/programs/pralinewww/), an iterative versatile progressive multiple sequence alignment (MSA) tool. PRALINE provides various MSA optimisation strategies including weighted global and local profile pre-processing, secondary structure-guided...
Keywords: Outlier, Multiple sequence alignment Background Multiple sequence alignments are essential for many sequence analysis tasks [1–4]. They are widely used for phylogenetic analysis, discovery of conserved regions, protein function studies and structure prediction. One problem that can arise in ...
Freeware Used by6 people Download Free 1.3 MB Edit program info Info updated on:May 11, 2025 Software Informer Download popular programs, drivers and latest updates easily Edit and arrange genetic sequences by viewing alignments, analyzing the protein structures and generate quick reports on the sta...
We present EMMA (Extending Multiple alignments using MAFFT--add) for the problem of adding a set of unaligned sequences into a multiple sequence alignment (i.e., a constraint alignment). EMMA builds on MAFFT--add, which is also designed to add sequences into a given constraint alignment. ...
Multiple sequence alignments are often computed for known members of a protein family. The aim is to discover sequence motifs that are conserved across the mem bers of the protein family in order to infer the functionally important protein domains. Like