Dear All!I have a fastq experiment with some tandem duplication on a gene. I expet to have 30 50 bp of insertion.

.pindel  -T 15 -f hg19_primary.fa  -i prova.txt  -c chr19 -o sample

After I run picar I have a insert size of 242 as average and I use that information for run on pindel.

Unfortunately the duplication are empity:

I have this files :

0 Dec 11 11:15 samplepositive_TD
_LI
_CloseEndMapped
_BP
_INT
_INV
_D
_SI
_RP

What is RP? Any suggestion to help to detect the duplication?

Thanks in advance!