NAME

       repeatmasker-recon - finds repeat families from biological sequences

SYNOPSIS

       repeatmasker-recon seq_name_list_file MSP_file integer

DESCRIPTION

       The  RECON  package  implements  a  de  novo  algorithm  for the indentification of repeat
       families from biological sequences.

       The program implements an approach for the de novo identification  and  classification  of
       repeat  sequence  families  that  is  based  on extensions to the usual approach of single
       linkage clustering of local pairwise alignments between genomic sequences. The  extensions
       use  multiple  alignment  information to define the boundaries of individual copies of the
       repeats and to distinguish homologous but distinct repeat element families. When tested on
       the human genome, this approach was able to properly identify and group known transposable
       elements. The program, should be useful for first-pass automatic classification of repeats
       in newly sequenced genomes.

SEE ALSO

              zless /usr/share/doc/repeatmasker-recon/00README.gz

AUTHOR

       This  manpage was written by Andreas Tille for the Debian distribution and can be used for
       any other usage of the program.