---
name: "bp_seqret"
section: "1p"
platform: "linux"
package: "bioperl"
version: "1.7.8-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/bp_seqret"
---

# bp\_seqret(1p)

bioperl implementation of sequence fetch from local db (like EMBOSS seqret)

## NAME

bp\_seqret - bioperl implementation of sequence fetch from local db (like EMBOSS seqret)

## USAGE

bp\_seqret \[-f/--format outputformat\] \[-o/--out/--outfile outfile\] \[-d/--db dbname\] \[-i/--id/-s/--seqname seqname1\]

Example usage:

```
   bp_seqret -f fasta -db db.fa -i seq1 -i seq2 > output.fas
   bp_seqret db.fa:seq1 output.fas
   bp_seqret db.fa:seq1 -o output.fas
   bp_seqret -db db.fa -o output.fas seq1 seq2 seq3
   bp_seqret -db db.fa seq1 seq2 seq3 output.fas
   bp_seqret -db db.fa seq1 seq2 seq3 - > output.fas
```

The DB is expected to be a Fasta formatted sequence file with multiple sequences.

Output format is Fasta by default.

If no output filename is provided then output is written to STDOUT. Providing '-' as the output filename will accomplish the same thing.

## AUTHOR

Jason Stajich jason\_AT\_bioperl-dot-org