---
name: "mauveAlignment2anchors.pl"
section: "1"
platform: "linux"
package: "murasaki-common"
version: "1.68.6-14"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/mauveAlignment2anchors.pl"
---

# mauveAlignment2anchors.pl(1)

converts a Mauve alignment into Murasaki anchor format based on gapped alignment data (each gap triggers a new anchor). Note this refers to the Mauve alignment format, not the LAGAN .alignment file that Mauve also outputs.

## NAME

mauveAlignment2anchors - converts a Mauve alignment into Murasaki anchor format based on gapped alignment data (each gap triggers a new anchor). Note this refers to the Mauve alignment format, not the LAGAN .alignment file that Mauve also outputs.

## SYNOPSIS

mauveAlignment2anchors \<input\> \[output\]

## OPTIONS

```
  --autoout -- create output file name automatically (on by default)
  --noautoout -- disable the above "autoout" option
```