import java.util.LinkedList;
import java.util.Scanner;

public class Main {
	public static void main(String[] args){
		String[][] strand = new String[2][10];
		
		System.out.println("Original strand Sequence:");
		for (int i = 0; i<strand[0].length; i++){
			int baseNum = (int) (Math.random() * 4);
			String baseLet = "";
			switch(baseNum){
			case 0: baseLet = "A";
			break;
			case 1: baseLet = "T";
			break;
			case 2: baseLet = "C";
			break;
			case 3: baseLet = "G";
			}
			strand[0][i] = baseLet;
		}
		toHelix(strand);
		toDNA(strand);

		Scanner scan = new Scanner(System.in);
		System.out.println("Enter Sequence to Cut At:");
		System.out.println("For Example: \nG AAC \nCA TG");
		String input=scan.nextLine();

		splice(strand, input);
	}

	public static String[][] toHelix(String[][] strand) {
		for(int i = 0; i<strand[1].length; i++){
			String basePair = "";
			switch(strand[0][i]){
			case "A": basePair = "T";
			break;
			case "T": basePair = "A";
			break;
			case "C": basePair = "G";
			break;
			case "G": basePair = "C";
			break;
			}
			strand[1][i] = basePair;
		}
		return strand;
		// TODO Auto-generated method stub
		
	}

	public static String[][] splice(String[][] strand, String splitPos){
		return strand;

	}
	public String[][] transcribe(String[][] strand){
		return strand;

	}
	public String[][] translate(String[][] strand){
		return strand;

	}
	public static void toDNA(String[][] strand){

		for(int i = 0; i<2; i++){
			if (i == 1){
				System.out.println("");
			}
			for(int k = 0; k<strand[i].length; k++){
				System.out.print(strand[i][k]);
		}
		System.out.println("");
	}
}

}

@@ -151,18 +151,16 @@
 2%5D%5B10%5D;%0A
-%09%09
 %0A%09%09Syste
@@ -583,16 +583,42 @@
 em.in);%0A
+%09%09System.out.println(%22%22);%0A
 %09%09System
@@ -728,17 +728,59 @@
 ng input
-=
+ = scan.nextLine();%0A%09%09String input2 = %0A%09%09%09%09
 scan.nex
@@ -1213,18 +1213,16 @@
 od stub%0A
-%09%09
 %0A%09%7D%0A%0A%09pu
@@ -1656,18 +1656,38 @@
 %5Bk%5D);%0A%09%09
+%09
 %7D%0A
+%09%09%09if (i == 1) %7B%0A%09%09
 %09%09System
@@ -1705,15 +1705,22 @@
 n(%22%22);%0A%09
-%7D%0A
+%09%09%7D%0A%09%09%7D%0A%09
 %7D%0A%0A%7D%0A

Update Splice.java