Search results
Results from the WOW.Com Content Network
The main diagonal represents the sequence's alignment with itself; lines off the main diagonal represent similar or repetitive patterns within the sequence. In bioinformatics a dot plot is a graphical method for comparing two biological sequences and identifying regions of close similarity after sequence alignment. It is a type of recurrence plot.
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 of functional, structural, or evolutionary relationships between the sequences. [1] Aligned sequences of nucleotide or amino acid residues are typically represented as rows within a matrix.
The alignment of individual motifs is then achieved with a matrix representation similar to a dot-matrix plot in a pairwise alignment. An alternative method that uses fast local alignments as anchor points or seeds for a slower global-alignment procedure is implemented in the CHAOS/DIALIGN suite.
This list of sequence alignment software is a compilation of software tools ... Web-based dot-plot tool: ... Uses a hash table and bloom matrix to create and filter ...
FASTA is a DNA and protein sequence alignment software package ... in a dot plot, between the two sequences by counting k ... sequences use the identity matrix for ...
The initial scoring matrix of Smith–Waterman algorithm enables the alignment of any segment of one sequence to an arbitrary position in the other sequence. In Needleman–Wunsch algorithm, however, end gap penalty also needs to be considered in order to align the full sequences.
A global alignment performs an end-to-end alignment of the query sequence with the reference sequence. Ideally, this alignment technique is most suitable for closely related sequences of similar lengths. The Needleman-Wunsch algorithm is a dynamic programming technique used to conduct global alignment. Essentially, the algorithm divides the ...
The Sequence View is used to visualize, analyze and modify nucleic acid or protein sequences. Depending on the sequence type and the options selected, the following views can be present in the Sequence View window: 3D structure view; Circular view; Chromatogram view; Graphs View: GC-content, AG-content, and other; Dot plot view