Warning: Sample has a non-default paired-end layout!

[liujiaxin7]

I run delly as follows: delly_v1.1.5_linux_x86_64bit call -g GCF_000001735.4_TAIR10.1_genomic.fna SRR21814509.sorted.marked.bam > delly.vcf

but I encountered a warning!

Warning: Sample has a non-default paired-end layout! The expected paired-end orientation is ---Read1---> <---Read2--- which is the default illumina paired-end layout.

I don't quite understand what this means. Do you have such problems ? How did you deal with it? Thank you in advance！

[tobiasrausch]

This warning usually points to a problem in the library prep.

[liujiaxin7]

This warning usually points to a problem in the library prep.

Thank you very much. I'm going to check this！