.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.40.9.
.TH LASTDB "1" "May 2012" "lastdb 199" "User Commands"
.SH NAME
lastdb \- genome-scale comparison of biological sequences
.SH SYNOPSIS
.B lastdb
[\fIoptions\fR] \fIoutput-name fasta-sequence-file(s)\fR
.SH DESCRIPTION
Prepare sequences for subsequent alignment with lastal.
.PP
Main Options:
\fB\-h\fR: show all options and their default settings
\fB\-p\fR: interpret the sequences as proteins
\fB\-c\fR: soft\-mask lowercase letters
.PP
Advanced Options (default settings):
\fB\-Q\fR: input format: 0=fasta, 1=fastq\-sanger, 2=fastq\-solexa, 3=fastq\-illumina (0)
\fB\-s\fR: volume size (unlimited)
\fB\-m\fR: spaced seed pattern
\fB\-u\fR: subset seed file (yass.seed)
\fB\-w\fR: index step (1)
\fB\-a\fR: user\-defined alphabet
\fB\-b\fR: bucket depth
\fB\-x\fR: just count sequences and letters
\fB\-v\fR: be verbose: write messages about what lastdb is doing
.SH "REPORTING BUGS"
Report bugs to: last (ATmark) cbrc (dot) jp
.br
LAST home page: http://last.cbrc.jp/