---
name: "lastdb"
section: "1"
platform: "linux"
package: "last-align"
version: "1609-1+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/lastdb"
---

# lastdb(1)

genome-scale comparison of biological sequences

## 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/