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The Sequence class: a single sequence within an alignment

The Sequence class contains a single sequence, in a model (see Section 6.6) or in an alignment (see Section 6.15).

For alignment template structures (i.e., sequences for which a structure is also available) see the Structure class in Section 6.17.

Example: examples/python/

# Example for alnsequence objects

from modeller import *

env = environ()

aln = alignment(env, file='../commands/toxin.ali')
print("Alignment contains %d sequences:" % len(aln))
for seq in aln:
    print("   Sequence %s from %s contains %d residues" \
          % (seq.code, seq.source, len(seq)))


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