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tRNAscan-SE -- a program for finding transfer RNAs

Copyright (C) 2017 Patricia P. Chan, Brian Lin, and Todd M. Lowe

This set of programs 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.

This program 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 this program, in the file GNULICENSE; if not, check out
the web site at https://www.gnu.org/licenses/gpl-3.0.en.html.

This distribution includes source code originally derived from other
sources.  In particular, modified source code from the program
trnascan 1.3 (Fichant & Burks, 1991) is included under the conditions
of the following notice:

 Copyright, 1991, The Regents of the University of California.
 This software was produced by the Los Alamos National Laboratory,
 which is operated by the University of California for the United
 States Department of Energy under contract W-7405-ENG-36.  The
 U. S. Government is licensed to use, reproduce, and distribute
 this software.  Permission is granted to the public to copy and
 use this software without charge, provided that this Notice and
 any statement of authorship are reproduced on all copies.
 Neither the Government nor the University makes any warranty,
 express or implied, or assumes any liability or responsibility
 for the use of this software.

Also, the complete COVE package (Covariance models of RNA sequence and
structure, Eddy & Durbin, 1994) is included under the terms of the GNU
General Public License as published by the Free Software Foundation;
either version 2 of the License, or (at your option) any later
version.  Please see accompanying files from the COVE package
for more information.


References

1. Fichant, G.A. and Burks, C. (1991) "Identifying potential tRNA
genes in genomic DNA sequences", J. Mol. Biol., 220, 659-671.

2. Eddy, S.R. and Durbin, R. (1994) "RNA sequence analysis using
covariance models", Nucl. Acids Res., 22, 2079-2088.