---
name: "nast-ier"
section: "1"
platform: "linux"
package: "nast-ier"
version: "20101212+dfsg1-6"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/nast-ier"
---

# nast-ier(1)

NAST-based DNA alignment tool

## NAME

nast-ier - NAST-based DNA alignment tool

## DESCRIPTION

The NAST-iEr alignment utility aligns a single raw nucleotide sequence against one or more NAST formatted sequences.

The alignment algorithm involves global dynamic programming profile alignment to fixed (NAST-formatted) multiply aligned template sequences without any end-gap penalty.

NAST-iEr is part of the microbiomeutil suite.

## OPTIONS

### Required:

- **--query\_FASTA**

  query database in FASTA format (seqs to NAST-align)

### Optional: (unless defaults are not set!)

- **--db\_NAST**

  reference database in NAST format (default: */usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.NAST\_ALIGNED.fasta*)

- **--db\_FASTA**

  reference database in FASTA format (default: */usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.fasta*)

- **--num\_top\_hits**

  number of top hits to use for profile-alignment (default: 10)

- **--Evalue**

  Evalue cutoff for top hits (default: 1e-50)

## SEE ALSO

http://microbiomeutil.sourceforge.net/#A\_NASTiEr

## AUTHOR

This manual page was written by Andreas Tille \<tille@debian.org\> but can be freely used for any other distribution.