Tophat error: Error: qual length (113) differs from seq length (101) for fastq record

[JenBarb]

I am getting a couple of errors like this on two out of 18 of my files. Has anyone seen this and if so, does anyone know what it means or how to fix it?

Thanks,
Jen

[ronaldrcutler]

As suggested by GenoMax, try this command to examine the offending record by pulling it out of the file

$ cat (or zcat) <fastq_file_name> | grep <sequence_identifier> -A 3