Sequence Editors
Serial Cloner has been developed to provide a light molecular biology software to both Macintosh and Windows users. Serial Cloner reads and write DNA Strider-compatible files and import and export files in the universal FASTA format (as well as in pDRAW32 format). Powerful graphical display tools and simple interfaces help the analysis and construction steps in a very intuitive way.
http://serialbasics.free.fr/Serial_Cloner.html
Software package for extensive data analysis in molecular biology and evolution, for Windows ME/2000/XP/VISTA and Linux
http://dambe.bio.uottawa.ca/dambe.asp
Seqtools is a large collection of tools for basic and advanced analyses of nucleotide and protein sequences. The tools are wrapped into a common user interface making handling, storage, retrieval and viewing the results easy and logical.
http://www.seqtools.dk/
GENtle is a software for DNA and amino acid editing, database management, plasmid maps, restriction and ligation, alignments, sequencer data import, calculators, gel image display, PCR, and much more.
http://gentle.magnusmanske.de/
AnnHyb is a tool for working with and managing nucleotide sequences in multiple formats. The features include format conversion, sequence viewer, sequence editor, oligonucleotides alignment, restriction analysis, pattern searching, retrieval from servers, multi-alignment viewer, consensus determination ...
http://www.bioinformatics.org/annhyb/
A small but powerful DNA sequence editing and analysis program for Windows 95/98/NT/ME/2000/XP
http://www.dna-software.co.uk/
pDRAW32 DNA analysis software - freeware.
http://www.acaclone.com/
Integrated Bioinformatics Tools
http://genome.unipro.ru/
Plasmid Drawing
DNA Skew Graphing (GraphDNA) allows the user to generate graphical representations of raw DNA sequences. To date, there are 8 graphing options and the user can plot any of the individal genes or genomes in any format.
http://athena.bioc.uvic.ca/workbench.php?tool=graphdna&db=
Draw plasmids online
http://www.bioinformatics.org/savvy/
The PlasMapper server automatically generates and annotates plasmid maps using only the plasmid DNA sequence as input. Plasmid sequences up to 20,000 bp may be annotated and displayed. Plasmid figures may be rendered in PNG, JPG, SVG or SVGZ format. PlasMapper supports an extensive array of display options.
http://wishart.biology.ualberta.ca/PlasMapper/
PlasmaDNA: a free, cross-platform PLAsmid MAnipulation program
http://research.med.helsinki.fi/plasmadna/
CGView (Circular Genome Viewer) is a Java application and library for generating high-quality, zoomable maps of circular DNA (from plasmid to full genomes).
http://wishart.biology.ualberta.ca/cgview/
XPlasMap is a DNA mapping program.
http://www.iayork.com/XPlasMap/
A Plasmid Editor
http://www.biology.utah.edu/jorgensen/wayned/ape/