Multi Rev Trans accepts a protein alignment and uses a codon usage table to generate a degenerate DNA coding sequence Multi Rev Trans accepts a protein alignment and uses a codon usage table to generate a degenerate DNA coding sequence. The program also returns a graph that can be used to find regions of minimal […]
Protein GRAVY returns the GRAVY (grand average of hydropathy) value for the protein sequences you enter Protein GRAVY returns the GRAVY (grand average of hydropathy) value for the protein sequences you enter. The GRAVY value is calculated by adding the hydropathy value for each residue and dividing by the length of the sequence Click to […]
Protein Molecular Weight accepts one or more protein sequences and calculates molecular weight Protein Molecular Weight accepts one or more protein sequences and calculates molecular weight. You can append copies of commonly used epitopes and fusion proteins using the supplied list. Use Protein Molecular Weight when you wish to predict the location of a protein […]
Sequence Manipulation Suite – Sequence Analysis-generating, formatting, and analyzing short DNA and protein sequences The Sequence Manipulation Suite is a collection of JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences. It is commonly used by molecular biologists, for teaching, and for program and algorithm testing. -Codon Plot -Codon Usage -CpG Islands […]
DNA Pattern Find accepts one or more sequences along with a search pattern and returns the number and positions of sites that match the pattern DNA Pattern Find accepts one or more sequences along with a search pattern and returns the number and positions of sites that match the pattern. Use DNA Pattern Find to […]
PCR Products accepts one or more DNA sequence templates and two primer sequences PCR Products accepts one or more DNA sequence templates and two primer sequences. The program searches for perfectly matching primer annealing sites that can generate a PCR product. Any resulting products are sorted by size, and they are given a title specifying […]
Mutate for Digest accepts a DNA sequence as input and searches for regions that can easily be mutated to create a restriction site of interest Mutate for Digest accepts a DNA sequence as input and searches for regions that can easily be mutated to create a restriction site of interest. The program also displays protein […]
Codon Usage accepts one or more DNA sequences and returns the number and frequency of each codon type Codon Usage accepts one or more DNA sequences and returns the number and frequency of each codon type. Since the program also compares the frequencies of codons that code for the same amino acid (synonymous codons), you […]
Pairwise Align DNA accepts two DNA sequences and determines the optimal global alignment Pairwise Align DNA accepts two DNA sequences and determines the optimal global alignment. Use Pairwise Align DNA to look for conserved sequence regions. Click to use the tools>>Pairwise Align DNA
CpG Islands reports potential CpG island regions using the method described by?Gardiner-Garden and Frommer CpG Islands reports potential CpG island regions using the method described by?Gardiner-Garden and Frommer (1987). The calculation is performed using a 200 bp window moving across the sequence at 1 bp intervals. CpG islands are defined as sequence ranges where the […]
