GBCommon.java

/*
 * To change this template, choose Tools | Templates
 * and open the template in the editor.
 */

package com.ohnosequences.util.genbank;

/**
 *
 * @author ppareja
 */
public class GBCommon {

    public static final String GEN_BANK_FILE_EXTENSION = ".gbk";
    public static final int NUMBER_OF_WHITE_SPACES_FOR_INDENTATION = 12;
    public static final int NUMBER_OF_WHITE_SPACES_FOR_INDENTATION_FEATURES = 21;
    public static final String FIRST_LEVEL_INDENTATION = "  ";
    public static final String FIRST_LEVEL_INDENTATION_FEATURES = "     ";
    public static final String LOCUS_STR = "LOCUS";
    public static final String LOCUS_LINE_SEPARATOR = "    ";
    public static final String DEFINITION_STR = "DEFINITION";
    public static final String ACCESSION_STR = "ACCESSION";
    public static final String VERSION_STR = "VERSION";
    public static final String DBLINK_STR = "DBLINK";
    public static final String KEYWORDS_STR = "KEYWORDS";
    public static final String SOURCE_STR = "SOURCE";
    public static final String ORGANISM_STR = "ORGANISM";
    public static final String FEATURES_STR = "FEATURES";
    public static final String COMMENT_STR = "COMMENT";
    public static final String SOURCE_FEATURES_STR = "source";
    public static final String CDS_STR = "CDS";
    public static final String GENE_STR = "gene";
    public static final String RNA_STR = "rna";
    public static final String MISC_RNA_STR = "miscRNA";
    public static final String M_RNA_STR = "mRNA";
    public static final String NC_RNA_STR = "ncRNA";
    public static final String R_RNA_STR = "rRNA";
    public static final String TM_RNA_STR = "tmRNA";
    public static final String T_RNA_STR = "tRNA";
    public static final String BASE_PAIRS_STR = "bp";
    public static final String CONTIGS_SIZE_STR = "rc";
    public static final String ORIGIN_STR = "ORIGIN";
    public static final String DNA_STR = "DNA";
    public static final String WGS_STR = "WGS";
    public static final String LINEAR_STR = "linear";
    public static final String CIRCULAR_STR = "circular";
    public static final String LAST_LINE_STR = "//";

    public static final int LINE_MAX_LENGTH = 80;

}