#-------------------------------------------------------------------------------
# Jalview - A Sequence Alignment Editor and Viewer (Version 2.5.1)
# Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
#
# This file is part of Jalview.
#
# Jalview is free software: you can redistribute it and/or
# modify it under the terms of the GNU General Public License
# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
#
# Jalview is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the implied warranty
# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
# PURPOSE. See the GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License along with Jalview. If not, see .
#-------------------------------------------------------------------------------
Multiple Sequence Alignment Web Service
Multiple Sequence Alignment Web Services
Multiple sequence alignment services are accessed from the Web
Service→Alignment menu. When an entry from this menu is
selected, either the currently selected residues, or the whole
sequence set (if there is no selection or only one sequence is
selected) will be submitted for multiple sequence alignment.
There are two kinds of multiple sequence alignment operations
available:
- alignment - where a new alignment is constructed from the input
- realignment -
where any existing alignments in the input are passed to the service
for profile based alignment.
Multiple Alignments of Sequences with hidden columns
Multiple alignment services are 'column separable' analysis
operations. If the input contains hidden columns then each
visible segment of the input sequence set will be submitted for
alignment separately, and the results concatenated (with the hidden
regions preserved) once all alignment functions have completed. Each
sub-job's state is reported in its own tab:
Multiple Multiple Sequence Alignment sub jobs running at
once
