Oligo Design and Analysis Tools
<http://www.idtdna.com/SciTools/SciTools.aspx>

Integrated DNA Technologies' SciTools

Conversion of DNA Sequence to its Reverse
<http://www.bioinformatics.org/sms/rev_comp.html>

Converts a DNA sequence into its reverse, complement, or reverse-complement counterpart.

Oligonucleotide Properties Calculator
<http://www.basic.northwestern.edu/biotools/oligocalc.html>

Calculates Tm and other Physical Properties of DNA or RNA

Protocol Online
<http://www.protocol-online.org>

Protocol Online - Your Lab's Reference book

Basic Local Alignment Search Tool
(BLAST)
<http://www.ncbi.nlm.nih.gov/BLAST/>

BLAST finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches.

ExPASy>
<http://www.expasy.org/tools/>

ExPASy, tools for protein identification, characterization and DNA sequence analysis.

Molecular Databases on NCBI
<http://www.ncbi.nlm.nih.gov/Database/index.html>

A list of molecular databases from NCBI including; Nucleotide Databases, Protein Databases, Structure Databases, Taxonomy Databases, Genome Databases and Expression Databases.

The Sequence Manipulation Suite is a collection of JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences.

Beacon Designer free edition is an online qpcr design tool that can be used to screen SYBR Green primers and TaqMan probes for possible secondary structures such as dimers or hairpins.