Something

public class DilberMain {   /** Creates a new instance of DilberMain */
public static void main(final String[] args) {
        //String DNA="",fileName,source;
	int hs,win;
        String[] inputs;
         inputs = new String[5];

        win = Integer.parseInt(JOptionPane.showInputDialog("Enter the size of the window"));
	hs = Integer.parseInt(JOptionPane.showInputDialog("Enter the size of the hash table"));
        SequenceHasher sh = new SequenceHasher(hs);
	
    for(int x=0; x < 5; x++) {
    fileName = JOptionPane.showInputDialog("Enter the DNA sequences file");
       Scanner fileIn = new Scanner(new File(fileName));
           try {
               inputs[x] = inputs[x]+fileIn.nextLine();
           }

        }
        } catch(FileNotFoundException e){
            System.out.println(e);
    }
}