for i in  *md.bam
do
    echo $i
    samtools index $i
    /data/results/tools/align/rnaseqmut/rnaseqmut-master/bin/rnaseqmut.linux.x64 -t -m 0 $i  | awk -f /data/results/tools/align/rnaseqmut/count-conversions1.awk > $i.conversion.stats
done