# Blocks Multiple Alignment Processor

Blocks are carved out from a protein multiple sequence alignment to provide input for:

- Sequence logos
- Phylogenetic trees
- Structures
- Blocks-based searches, which may be performed using search engines such as
  - MAST
  - LAMA
- CODEHOP oligonucleotide primers
- SIFT deleterious substitution predictions

Your multiple alignment may include up to 400 sequences in one of the following formats:

- Blocks format such as is provided by Block Maker.
  - You may format alignments manually as blocks.

- FASTA, CLUSTAL/STOCKHOLM or MSF format.

Ungapped regions between the requested minimum and maximum widths will be carved out of the submitted multiple alignment and converted to Blocks format. You can insert a column of gaps in your FASTA, CLUSTAL or MSF alignment to force block edges.

Enter the minimum block width:
Enter the maximum block width:
Enter the name of a file containing your protein multiple alignment:
-or-
Enter your protein multiple alignment below and .

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

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Page last modified Aug 2003