NAME

       lastdb - genome-scale comparison of biological sequences

SYNOPSIS

       lastdb [options] output-name fasta-sequence-file(s)

DESCRIPTION

       Prepare sequences for subsequent alignment with lastal.

OPTIONS

   Main Options
       -h, --help
              show all options and their default settings, and exit

       -p     interpret the sequences as proteins

       -R     repeat-marking options (default=10)

       -c     soft-mask lowercase letters

   Advanced Options (default settings)
       -Q     input format: 0=fasta, 1=fastq-sanger, 2=fastq-solexa, 3=fastq-illumina (0)

       -s     volume size (unlimited)

       -m     seed pattern (non-DNA: 1)

       -u     seeding scheme (DNA: YASS)

       -w     index step (1)

       -a     user-defined alphabet

       -i     minimum limit on initial matches per query position (0)

       -b     bucket depth

       -C     child table type: 0=none, 1=byte-size, 2=short-size, 3=full (0)

       -x     just count sequences and letters

       -v     be verbose: write messages about what lastdb is doing

       -V, --version
              show version information, and exit

REPORTING BUGS

       Report bugs to: last-align@googlegroups.com
       LAST home page: http://last.cbrc.jp/