Thread: Java Word Scrambling Game Method Help!

I have made a simple word scrambling game - and while it works, I need to separate it into methods. I have tried multiple different things and none of them seem to work. Any suggestions are welcome. Here is my code:

import java.util.Scanner;
import java.io.*;
 
public class WordScrambler{
 
    Scanner userInput = new Scanner(System.in);
    final static int numOfChoices = 4; 
    final static String choice1 = "Sports";
    final static String choice2 = "Clothing";
    final static String choice3 = "Subjects";
    final static String choice4 = "Animals";
 
 
    public static void run() throws FileNotFoundException{
 
      Scanner userInput = new Scanner(System.in);
       System.out.println("Hi! Welcome to Wonders with Words :) Are you ready to unscramble? Type Yes or No");
    String areYouReady = userInput.next();
    if (areYouReady.indexOf("Yes") > -1){
         System.out.println("Which category would you like to play? You have: " + numOfChoices + " choices: " + choice1 + "," + choice2 + "," + choice3 + " or " + choice4 + ".");
         String userChoice = userInput.next(); 
            if(userChoice.indexOf("Sports") > -1){
              Scanner newFileInput = new Scanner(new File("sports.txt"));
                 int sizeOfArray = 0;
                 while(newFileInput.hasNextLine()){
                   String input = newFileInput.nextLine();
                   sizeOfArray++; 
                 }//end while
                 newFileInput.close();
     newFileInput = new Scanner(new File("sports.txt"));
     String[] words = new String[sizeOfArray];
       for (int i = 0; i<words.length; i++)
        words [i] = newFileInput.next();
        newFileInput.close();
        String userGuess = "";
        int correctAns = 0;
        int wrongAns = 0;
        String[] scrambledWords = new String[sizeOfArray];
        for (int i = 0; i<words.length; i++)
          scrambledWords[i] = words[i].substring(1, 3) + words[i].substring(5, words[i].length()) + words[i].substring(0,1) + words[i].substring(3, 5);
          for(int i = 0; i<words.length; i++){
          System.out.println("Your word is: " + scrambledWords[i]);
          userGuess = userInput.next();
         if(words[i].indexOf(userGuess) > -1)
           correctAns++;
         else {
           wrongAns++;
           System.out.println("The correct answer is: " + words[i]);
         }//end else
          }//end for
          System.out.println("You got " + correctAns + " words right!");
            }//end if  
    else if(userChoice.indexOf("Clothing") > -1){
      Scanner newFileInput = new Scanner(new File("clothing.txt"));
      int sizeOfArray = 0;
     while(newFileInput.hasNextLine()){
       String input = newFileInput.nextLine();
       sizeOfArray++;
     }//end while
     newFileInput.close();
     newFileInput = new Scanner(new File("clothing.txt"));
     String[] words = new String[sizeOfArray];
       for (int i = 0; i<words.length; i++)
        words [i] = newFileInput.next();
        newFileInput.close();
        String userGuess = "";
        int correctAns = 0;
        int wrongAns = 0;
        String[] scrambledWords = new String[sizeOfArray];
        for (int i = 0; i<words.length; i++)
          scrambledWords[i] = words[i].substring(1, 3) + words[i].substring(5, words[i].length()) + words[i].substring(0,1) + words[i].substring(3, 5);
          for(int i = 0; i<words.length; i++){
          System.out.println("Your word is: " + scrambledWords[i]);
          userGuess = userInput.next();
          if(words[i].indexOf(userGuess) > -1)
           correctAns++;
         else {
           wrongAns++;
           System.out.println("The correct answer is: " + words[i]);
         }//end else
         }//end for
     System.out.println("You got " + correctAns + " words right!");
    }//end if  
    else if(userChoice.indexOf("Subjects") > -1){
      Scanner newFileInput = new Scanner(new File("subjects.txt"));
      int sizeOfArray = 0;
     while(newFileInput.hasNextLine()){
       String input = newFileInput.nextLine();
       sizeOfArray++;
     }//end while
     newFileInput.close();
     newFileInput = new Scanner(new File("subjects.txt"));
     String[] words = new String[sizeOfArray];
       for (int i = 0; i<words.length; i++)
        words [i] = newFileInput.next();
        newFileInput.close();
        String userGuess = "";
        int correctAns = 0;
        int wrongAns = 0;
        String[] scrambledWords = new String[sizeOfArray];
        for (int i = 0; i<words.length; i++)
          scrambledWords[i] = words[i].substring(1, 3) + words[i].substring(5, words[i].length()) + words[i].substring(0,1) + words[i].substring(3, 5);
          for(int i = 0; i<words.length; i++){
            System.out.println("Your word is: " + scrambledWords[i]);
          userGuess = userInput.next();
          if(words[i].indexOf(userGuess) > -1)
           correctAns++;
         else {
           wrongAns++;
           System.out.println("The correct answer is: " + words[i]);
         }//end else
          }//end for
    System.out.println("You got " + correctAns + " words right!");
    }//end if  
   else if(userChoice.indexOf("Animals") > -1){
      Scanner newFileInput = new Scanner(new File("animals.txt"));
      int sizeOfArray = 0;
     while(newFileInput.hasNextLine()){
       String input = newFileInput.nextLine();
       sizeOfArray++;
     }//end while
     newFileInput.close();
     newFileInput = new Scanner(new File("animals.txt"));
     String[] words = new String[sizeOfArray];
       for (int i = 0; i<words.length; i++)
        words [i] = newFileInput.next();
        newFileInput.close();
        String userGuess = "";
        int correctAns = 0;
        int wrongAns = 0;
        String[] scrambledWords = new String[sizeOfArray];
        for (int i = 0; i<words.length; i++)
          scrambledWords[i] = words[i].substring(1, 3) + words[i].substring(5, words[i].length()) + words[i].substring(0,1) + words[i].substring(3, 5);
          for(int i = 0; i<words.length; i++){
          System.out.println("Your word is: " + scrambledWords[i]);
          userGuess = userInput.next();
          if(words[i].indexOf(userGuess) > -1)
           correctAns++;
         else {
           wrongAns++;
           System.out.println("The correct answer is: " + words[i]);
         }//end else
          }//end for
          System.out.println("You got " + correctAns + " words right!");
 
          }//end if  
   else;
 
   }//end if
  }//end main
 
 
 
}//end class