> new_seq = Seq( 'TTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAA', IUPACAmbiguousDNA()) To import the enzymes, open a Python shell and type: The chapter is constructed as an interactive Python session and the best way to read it is with a Python shell open alongside you. This chapter will lead you through a quick overview of the facilities offered by the Restriction package of Biopython. Restriction make use of the facilities offered by REBASE and contains classes for more than 800 restriction enzymes. This package will allow you to work with restriction enzymes and realise restriction analysis on your sequence. The restriction enzyme package is situated in Bio.Restriction. Annexe: modifying dir() to use with from Bio.Restriction import *.Restriction reports cutting sites not enzyme recognition sites.Sites found at the edge of linear DNA might not be accessible in a real digestion.Non standard bases in DNA are not allowed.Compiling a new dictionary with ranacompiler.py.Fetching the recent enzyme files with rebase_update.py.Fetching the recent enzyme files manually from Rebase.Using / and // operators with FormattedSeq.Unlike Bio.Seq, FormattedSeq retains information about their shape.Advanced features: the FormattedSeq class.The Analysis class: even simpler restriction analysis.AllEnzymes and CommOnly: two preconfigured RestrictionBatches.Analysing sequences with a RestrictionBatch.Removing enzymes from a RestrictionBatch.

Restricting a RestrictionBatch to a particular supplier.The RestrictionBatch class: a class to deal with several enzymes.Other facilities provided by the enzyme classes.Retrieving the sequences produced by a digestion.Working with restriction enzymes Table of contents

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