Vector NTI!

BioEdit is a biological sequence alignment editor written for Windows 95/98/NT/2000/XP/7. An intuitive multiple document interface with convenient features makes alignment and manipulation of sequences relatively easy on your desktop computer. Several sequence manipulation and analysis options and links to external analysis programs facilitate a working environment which allows you to view and manipulate sequences with simple point-and-click operations.

Benchling is a life science data management and collaboration platform.

Scientific software for the molecular biologist. Performs virtual DNA cloning, analyses DNA for restriction enzymes, homing enzymes and primer sites, dam and dcm methylation sites, finds and translates open reading frames. Calculates annealing temperatures for PCR. Generates DNA/plasmid plots, virtual agarose gel plots, XY-homology plots - and more!

Genome Compiler is an easy to use genetic design platform allowing researchers to manipulate and design everything from single genes to entire genomes.

SnapGene is the first molecular biology software that is easier to use than pen and paper. Now every DNA construct made in your lab can be documented in a rich electronic format… and thanks to the free SnapGene Viewer, the files can be shared with colleagues around the world.

Multiple sequence alignment software.

A full featured multiple sequence alignment editor, analyser and shading utility for Windows.

Geneious combines all the major DNA and protein sequence analysis tools into one revolutionary software solution!

RasMol is a computer program written for molecular graphics visualization intended and used primarily for the depiction and exploration of biological macromolecule structures, such as those found in the Protein Data Bank. It was originally developed by Roger Sayle in the early 90s.Historically, it was an important tool for molecular biologists since the extremely optimized program allowed the software to run on (then) modestly powerful personal computers. Before RasMol, visualization software ran on graphics workstations that, due to their expense, were less accessible to scholars. RasMol has become an important educational tool as well as continuing to be an important tool for research in structural biology.RasMol has a complex version history. Starting with the series of 2.7 versions, RasMol is licensed under a dual license (GPL or custom license RASLIC).RasMol includes a language (for selecting certain protein chains, or changing colors etc.). Jmol and Sirius has incorporated the RasMol scripting language into its commands.Protein Databank (PDB) files can be downloaded for visualization from members of the Worldwide Protein Data Bank (wwPDB). These have been uploaded by researchers who have characterized the structure of molecules usually by X-ray crystallography, NMR spectroscopy or electron microscopy. »

Ridom TraceEdit is a cross-platform graphical DNA trace viewer and editor. TraceEdit displays the chromatogram files from Applied Biosystems automated sequencers and files in the Staden SCF format. Incorrect base calls can be edited and saved. TraceEdit is freely available and designed to operate on Windows and UNIX platforms.DNA sequencing has been the standard against which other types of DNA testing is compared. Major advances in DNA sequencing include the development of automated sequencers, discovery of fluorescent terminator chemistry, and cycle sequencing. These developments have made sequencing easier to perform and therefore more widely used. Currently, sequencing is used to identify microbial drug resistance mutations, cancer predisposition, somatic mutations, and genetic diseases. With the sequencing of the human genome and new era of molecular , one can only expect the use of DNA sequencing to increase. Therefore, an increasing number of people need to check the evidence for individual DNA sequences by inspecting the chromatograms (more commonly known as trace files) from which the base calls were deduced. Trace files are stored in proprietary formats, such as those of ABI, or public formats such as SCF. »

Two software applications are available from Technelysium: Chromas and ChromasPro.

UGENE is a free open-source cross-platform bioinformatics software

Serial Cloner has been developed to provide a light yet powerful molecular biology software to both Macintosh and Windows users. A Linux version is also distributed. Serial Cloner reads and write DNA Strider-compatible files and import and export files in the universal FASTA format. Serial Cloner also import files saved in the Vector NTI, MacVector, ApE, DNAstar, pDRAW32 and GenBank formats. Import from VectorNTI multi-file format is also supported. Powerful graphical display tools and simple interfaces help the analysis and construction steps in a very intuitive way. Serial Cloner 2.5, handles Annotations and Features both in the sequence and in the Graphic Map and can automatically scan for sequence Features. »

ApE is a science application for plasmid editing.

A free and open source GUI toolkit for DNA editing - written in python