i am sorry . i m not edit your code . i just give you another procedure 
String.prototype.toHHMMSS = function () {
    var sec_num = parseInt(this, 10); // don't forget the second param
    var hours   = Math.floor(sec_num / 3600);
    var minutes = Math.floor((sec_num - (hours * 3600)) / 60);
    var seconds = sec_num - (hours * 3600) - (minutes * 60);
    if (hours   < 10) {hours   = "0"+hours;}
    if (minutes < 10) {minutes = "0"+minutes;}
    if (seconds < 10) {seconds = "0"+seconds;}
    var time    = hours+':'+minutes+':'+seconds;
    return time;
}
Second Formula is 
function checkTime(i) {
    if (i < 10) {
        i = "0" + i;
    }
    return i;
}
function yourTime() {
    var today = new Date();
    var h = today.getHours();
    var m = today.getMinutes();
    var s = today.getSeconds();
    // add a zero in front of numbers<10
    m = checkTime(m);
    s = checkTime(s);
    document.getElementById('time').innerHTML = h + ":" + m + ":" + s;
    t = setTimeout(function () {
        startTime()
    }, 500);
}
yourTime();