In bioinformatics, a sequence alignment is a way of arranging the sequences of DNA, RNA, or protein to identify regions of similarity that may be a consequence...

Multiple sequence alignment (MSA) is the process or the result of sequence alignment of three or more biological sequences, generally protein, DNA, or...

Sequence Alignment Map (SAM) is a text-based format originally for storing biological sequences aligned to a reference sequence developed by Heng Li and...

of sequence alignment software is a compilation of software tools and web portals used in pairwise sequence alignment and multiple sequence alignment. See...

MUltiple Sequence Comparison by Log-Expectation (MUSCLE) is a computer software for multiple sequence alignment of protein and nucleotide sequences. It is...

bioinformatics, alignment-free sequence analysis approaches to molecular sequence and structure data provide alternatives over alignment-based approaches...

techniques that provide the sequence comparisons (sequence alignment) and analyze the alignment product to understand its biology. Sequence analysis in molecular...

method of scoring alignments of two or more sequences. When aligning sequences, introducing gaps in the sequences can allow an alignment algorithm to match...

another. In sequence alignments of proteins, the degree of similarity between amino acids occupying a particular position in the sequence can be interpreted...

acid sequences converge on a common tertiary structure. Structural alignments can compare two sequences or multiple sequences. Because these alignments rely...

Clustal is a computer program used for multiple sequence alignment in bioinformatics. The software and its algorithms have gone through several iterations...

(multiple alignment using fast Fourier transform) is a program used to create multiple sequence alignments of amino acid or nucleotide sequences. Published...

sequences, or DNA sequences that have common conserved binding sites, are aligned so that the most conserved parts create good alignments. A sequence...

This page is a subsection of the list of sequence alignment software. Multiple alignment visualization tools typically serve four purposes: Aid general...

acid or protein sequence as input, or use statistical models generated from multiple sequence alignments of known related sequences. Statistical models...

at each position in a sequence alignment. It represents the results of multiple sequence alignments in which related sequences are compared to each other...

homologous to the sequences that were used to construct the profile-HMM. Profile-HMMs are constructed from a multiple sequence alignment in the HMMER package...

the query sequence, and on the production of a sequence alignment that maps residues in the query sequence to residues in the template sequence. It has...

performs local sequence alignment; that is, for determining similar regions between two strings of nucleic acid sequences or protein sequences. Instead of...

areas of the life sciences. This includes visualization of sequences, genomes, alignments, phylogenies, macromolecular structures, systems biology, microscopy...

protein molecules Sequence alignment, in bioinformatics, arranging the sequences of DNA, RNA, or protein to identify similarities Alignment program, software...

scaffold. The first sequence assemblers began to appear in the late 1980s and early 1990s as variants of simpler sequence alignment programs to piece together...

sequence alignment is an important application where dynamic programming is essential. Typically, the problem consists of transforming one sequence into...

local alignment search tool) is an algorithm and program for comparing primary biological sequence information, such as the amino-acid sequences of proteins...

Maq). In an effort to reduce the memory requirement for sequence alignment, several alignment programs were developed (Bowtie, BWA, and SOAP2) that use...

Needleman–Wunsch algorithm: find global alignment between two sequences Smith–Waterman algorithm: find local sequence alignment Exchange sorts Bubble sort: for...

then obtain the local alignment. Multiple sequence alignment is an extension of pairwise alignment to align several sequences at a time. Different MSA...

changes from a common ancestral sequence. Alignments of multiple sequences are used to indicate which regions of each sequence are homologous. The term "percent...

Alignment Map (BAM) is the comprehensive raw data of genome sequencing; it consists of the lossless, compressed binary representation of the Sequence...

matrix used for sequence alignment of proteins. BLOSUM matrices are used to score alignments between evolutionarily divergent protein sequences. They are based...