---
name: "fastaq-search_for_seq"
section: "1"
platform: "linux"
package: "fastaq"
version: "3.17.0-9"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/fastaq-search_for_seq"
---

# fastaq-search\_for\_seq(1)

Find all exact matches to a string (and its reverse complement)

## NAME

fastaq\_search\_for\_seq - Find all exact matches to a string (and its reverse complement)

## DESCRIPTION

usage: fastaq\_search\_for\_seq \[options\] \<infile\> \<outfile\> \<search\_string\>

Searches for an exact match on a given string and its reverse complement, in every sequence of input sequence file. Case insensitive. Guaranteed to find all hits

### positional arguments:

- infile

  Name of input file

- outfile

  Name of outputfile. Tab-delimited output: sequence name, position, strand

- search\_string

  String to search for in the sequences

### options:

- **-h**, **--help**

  show this help message and exit