# Block Maker

at the Fred Hutchinson Cancer Research Center BlockS WWW server.

Block Maker finds conserved blocks in a group of two or more unaligned protein sequences, which are assumed to be related, using two different algorithms.
If you already have a multiple alignment, please use the Multiple Alignment Processor instead.

At least two related protein sequences must be provided to make blocks. Each sequence must have a unique name of 10 characters or less. If you have the accession numbers of some sequences you would like to use, Batch Entrez can create a file for you in FASTA format.

If you have a file a sequences in a format other than FASTA, you can convert them to FASTA format at the EBI conversion tool.

It may take several minutes to process your sequences. If you are not prepared to wait for a response, or have more than 25 sequences or more than 15,000 amino acids, please provide an email address and your results will be returned to you in two messages. The second message contains your blocks in Blocks Database format, and you can copy and paste these into the Multiple Alignment Processor to get Logos and Trees, to search sequence database using Cobbler or Mast, and to predict PCR primers using CODEHOPs.

Enter your email address if you want the results through email:

Enter a short description of your group of sequences:

Enter the name of a file containing your protein sequences:
-or-
Enter your protein sequences in a single format (e.g. FASTA):

Note: It may take several minutes to compute the results: Please be patient.

You might be interested in trying other multiple sequence alignment methods, including ClustalW, MAP and PIMA, at the Human Genome Center at the Baylor College of Medicine, Multiple EM for Motif Elicitation at the San Diego Supercomputer Center and the Gibbs Motif Sampler at the Wadsworth Center.

[Blocks home] [Block Searcher] [Block Maker] [Get Blocks] [LAMA Searcher]

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Page last modified on Oct 2003