for f in /home/cmccabe/Desktop/HiQ/*base_counts.txt ; do
     bname=`basename $f`
     pref=${bname%%.txt}
     awk -f /home/cmccabe/Desktop/match.awk /home/cmccabe/Desktop/panels/PCD_unix_corrected.bed $f > /home/cmccabe/Desktop/HiQ/${pref}_PCD_coverage.
     awk -f /home/cmccabe/Desktop/match.awk /home/cmccabe/Desktop/panels/BMF_unix_corrected.bed $f > /home/cmccabe/Desktop/HiQ/${pref}_BMF_coverage.bed
     awk -f /home/cmccabe/Desktop/match.awk /home/cmccabe/Desktop/panels/PAH_unix_corrected.bed $f > /home/cmccabe/Desktop/HiQ/${pref}_PAH_coverage.bed
     awk -f /home/cmccabe/Desktop/match.awk /home/cmccabe/Desktop/panels/PID_unix_corrected.bed $f > /home/cmccabe/Desktop/HiQ/${pref}_PID_coverage.bed
done

BEGIN {
  FS="[ \t|]*"
}
# Read search terms from file1 into 's'
FNR==NR {
    s[$0]
    next
}
{
    # Check if $5 matches one of the search terms
    for(i in s) {
        if($5 ~ i) {

            # Store first two fields for later usage
            a[$5]=$1
            b[$5]=$2

            # Add $9 to total of $9 per $5
            t[$5]+=$8
            # Increment count of occurences of $5
            c[$5]++

            next
        }
    }
}
END {

    # Calculate average and print output for all search terms
    # that has been found
    for( i in t ) {
        avg = t[i] / c[i]
        printf "%s:%s\t%s\t%s\n", a[i], b[i], i, avg | "sort -k3,3n"
    }
}