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globals.h

/************************************************************
 * HMMER - Biological sequence analysis with profile HMMs
 * Copyright (C) 1992-1998 Washington University School of Medicine
 * All Rights Reserved
 * 
 *     This source code is distributed under the terms of the
 *     GNU General Public License. See the files COPYING and LICENSE
 *     for details.
 ************************************************************/

/* globals.h
 * Mon Nov 18 13:05:03 1996
 * 
 * Global variable definitions. 
 * This file may only be included in a main() .c file.
 */

char  Alphabet[MAXCODE]; /* ACGT, for instance                    */ 
int   Alphabet_type;     /* hmmNUCLEIC or hmmAMINO                */
int   Alphabet_size;     /* uniq alphabet size: 4 or 20           */
int   Alphabet_iupac;    /* total size of alphabet + IUPAC degen. */
char  Degenerate[MAXCODE][MAXABET];
int   DegenCount[MAXCODE];


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