CODEHOP:

COnsensus-DEgenerate Hybrid Oligonucleotide Primers

um ótimo site para desenho de sequencia multipla de aligment’s

pra você que busca praticidade este link é maravilhoso confira!

PCR primers designed from protein multiple sequence alignments

• Getting started
• Full Help file
• The CODEHOP algorithm
• The CODEHOP manuscript
• Genes identified using CODEHOP
• The input should be a set of local multiple alignments (blocks) of a group of related protein sequences. The alignments must be in Blocks Database format, such as in Block Maker

output.

• Ungapped parts of Clustal- or FASTA-formatted global multiple alignments can be automatically turned into blocks by the Blocks multiple alignment processor. You can also manually reformat multiple sequence alignments with the Blocks formatter.
• The output of all these programs contains links that send the resulting blocks to this page.
• If your sequences align globally, you will get better multiple alignment results from Clustal than from the motif finders used by Block Maker.
• Blocks are processed using sequence weights (the numbers following each sequence segment). To emphasize particular sequences in the block(s) manually adjust the sequence weights. Increase the number to give a sequence more weight.

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Fonte: http://bioinformatics.weizmann.ac.il

Creditos: Dr O.liverkall (: