`Location`#

class biotite.sequence.Location(first, last, strand=Strand.FORWARD, defect=<Defect.NONE: 0>)[source]#

Bases: object

A Location defines at which base(s)/residue(s) a feature is located.

A feature can have multiple Location instances if multiple locations are joined.

Objects of this class are immutable.

Parameters:

firstint: Starting base or residue position of the feature.
lastint: Inclusive ending base or residue position of the feature.
strandStrand: The strand direction. Always Strand.FORWARD for peptide features.
defectDefect: A possible defect of the location.

Attributes:

first, last, strand, defect: Same as the parameters.

class Defect(*values)#

Bases: Flag

This enum type describes location defects.

A location has a defect, when the feature itself is not directly located in the range of the first to the last base.

NONE - No location defect

MISS_LEFT - A part of the feature has been truncated before the first base/residue of the Location (probably by indexing an Annotation object)

MISS_RIGHT - A part of the feature has been truncated after the last base/residue of the Location (probably by indexing an Annotation object)

BEYOND_LEFT - The feature starts at an unknown position before the first base/residue of the Location

BEYOND_RIGHT - The feature ends at an unknown position after the last base/residue of the Location

UNK_LOC - The exact position is unknown, but it is at a single base/residue between the first and last residue of the Location, inclusive

BETWEEN - The position is between to consecutive bases/residues.