extractseq1e
Extract regions from a sequence
Usage
extractseq -sequence
sequence
-regions
range
[-separate
boolean]
-outseq
seqoutall
extractseq -help
Overview
extractseq is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Edit" command group(s).
Options
Input section
-
-sequence sequence
Required section
-
-regions range -
Regions to extract. A set of regions is specified by a set of pairs of positions. The positions are integers. They are separated by any non-digit, non-alpha character. Examples of region specifications are: 24-45, 56-78 1:45, 67=99;765..888 1,5,8,10,23,45,57,99 Default value: $(sequence.begin)-$(sequence.end)
Additional section
-
-separate boolean -
If this is set true then each specified region is written out as a separate sequence. The name of the sequence is created from the name of the original sequence with the start and end positions of the range appended with underscore characters between them, eg: XYZ region 2 to 34 is written as: XYZ_2_34 Default value: N
Output section
-
-outseq seqoutall
Releases
9 releases since Debian 5.0 (Lenny); the text changed 2 times.