t-coffee - 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1+b1 main

T-Coffee is a multiple sequence alignment package. Given a set of
sequences (Proteins or DNA), T-Coffee generates a multiple sequence
alignment. Version 2.00 and higher can mix sequences and structures.
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T-Coffee allows the combination of a collection of multiple/pairwise,
global or local alignments into a single model. It can also
estimate the level of consistency of each position within the new
alignment with the rest of the alignments. See the pre-print for more
information
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T-Coffee has a special called M-Coffee that makes it possible to combine the
output of many multiple sequence alignment packages. In its published version,
it uses MUSCLE, PROBCONS, POA, DiAlign-TS, MAFFT, Clustal W, PCMA and
T-Coffee. A special version has been made for Debian, DM-Coffee, that uses
only free software by replacing Clustal W by Kalign. Using the 8 Methods of
M-Coffee can sometimes be a bit heavy. You can use a subset of your favorite
methods if you prefer.