C - Program only doing 1 part of a if else statement

Hey so i am trying to create a program that will ask the user for a letter then count how many times that letter appears in a .txt document. I have the code 99% done its just that whatever if statement i put first is the only one that gives back the correct amount.

#include<stdio.h>
#include<string.h>
#include<ctype.h>
#define n 61 // Maximum size of file name

FILE* open_file(void) {
  char file_name[n]; FILE* input_file;
  printf("Enter name of the input file: "); scanf("%s", file_name);
  input_file = fopen(file_name, "r");
  while (input_file == NULL) {
    printf("\nERROR: File Not found \"%s\"\n", file_name);
    printf("Re-enter file name: ");
    scanf("%s", file_name);
    input_file = fopen(file_name, "r");}
  return input_file;}

void main() {
    char  inputLetter;
    char lowerLetter;
    char upperLetter;
    char chr;
    int upper;
    int lower;
    FILE* input_file = open_file();
    printf("Enter letter: ");
    scanf(" %c", &inputLetter);

    lowerLetter = tolower(inputLetter);
    upperLetter = toupper(inputLetter);
    while(1){
        chr = fgetc(input_file);
        if (chr == EOF){
            break;
        }
        else if(chr ==lowerLetter){
            lower++;
        }
        else if(chr == upperLetter){
            upper++;
        }
    }


    printf(" %c", inputLetter);
    printf(" %c %d ", lowerLetter, lower);
    printf(" %c %d ", upperLetter, upper);
  }

When reading a .txt document with 22 lower case e and 2 capital 2 it will print

e e 22 E 258

If i switch the two if statements with a counter it will print

e e 278 E 2

What am i doing wrong that it wont count both correctly?