Methods of alignment include Clustal, MAP, Pima, MSA, and Blockmaker. BCM Pairwise Alignment Generate a pairwise alignment using the BCK web page. Match-Box Generate a multiple sequence alignment, simply paste your sequence and choose a matrix. The program allows visualisation and manipulation of both protein and DNA sequences. WebLogos Build a sequence Logo with this tool.
Sequence logos are a graphical way of representing and visualizing biological information.
Generally they supercede consensus sequences as more precise and useful ways of conveying data. BCM Nuc Search Use the BCM Launcher to search for sequences related to an input sequence. Maximum size of nucleic acid sequence is 7000 bases. Codon Tables View Codon Tables for a number of different species including, vertebrate, invertebrate, yeast, mold as well as mitochondrial and others. DNA DotPlot Compare a DNA sequence to itself using an algorithm that uses a word size of eight and remaps the the matches onto a 500x500 grid.