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Attention:
Due to technical maintenance some tools might be unavailable. See maintenance information. 
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JALI - V. 1.3 - Welcome
This Project contains three parts:jali - online Version
available
This program takes as input a protein sequence and a multiple
alignment of a protein family and computes a jumping alignment of
the sequence and the alignment.
jsearch - no online Version available
This program takes as input a protein database and a multipe
alignment of a protein family, compares all proteins from the
database to the alignment, and then outputs the database in
sorted order with respect to the computed jumping alignment
score.
jscan - no online Version available
This program takes as input a protein sequence and a database of
multiple alignments of protein sequences (PRODOM format). jscan
computes a jumping alignment for the sequence and each multiple
alignment from the database, and then outputs the cluster names
in sorted order with respect to the computed jumping alignment
score.
A novel approach to remote homology detection: Jumping Alignments
R. Spang, M. Rehmsmeier, J. Stoye
J. Comp. Biol., volume 9, pp. 747-760, 2002
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