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Clustal
Clustal[1] has been part of the Sequencher family of plugins since version 4.9. It is a widely used multiple-sequence alignment program which works by determining all pairwise alignments on a set of sequences, then constructs a dendrogram grouping the sequences by approximate similarity and then finally performs the alignment using the dendogram as a guide. You can use Clustal to align your sequences directly from the Sequencher project window. Choose from a range of parameters to control the alignment process.
We have continued our strategy of adding functionality to Sequencher that focuses on labs doing DNA sequencing. Unlike many companies in this field, we are continuing work on improving the productivity and utility of Sanger sequencing based on feedback from our collaborators around the world, and focusing on smoothly integrating those features with the latest tools for next-generation DNA sequence alignment. If you work in a lab that supports NGS, you must already have information technology [I. T.] support, but our mission is to make the data and analysis of ALL sequencing data accessible and understandable to life scientists without requiring that they have a degree in computer engineering.
Sequence AssemblyStringency
Sequencher's intuitive controls allow you to set your sequence assembly parameters and adjust them within seconds, allowing you to assemble your DNA fragments quickly and accurately. Sequencher will automatically compare the forward and the reverse-complement orientations to assemble the best possible contigs, so you can assemble DNA sequences regardless of orientation.
Apply Sequencher's versatile assembly tools to
Compare gene variants to a reference sequence
Confirm vector constructs
Assemble viral and bacterial genomes
Cluster tens of thousands of sequences from cDNA libraries
Assemble cDNA to genomic sequence
Create a primer map
Restriction Mapping
Sequencher provides a rich set of tools for generating linear restriction maps of your DNA sequence. Filter your enzyme selection by frequency, nature of the overhang, or length of recognition sequence.
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