I have paired-end fastq files from RNA-seq which I am aligning with hisat2. Among all my 18 pairs of fastq files, I encountered an error for only one of them, which shows the message below:
Error: Read V300055969L2C002R0400381671/1 has more read characters than quality values. libc++abi.dylib: terminating with uncaught exception of type int (ERR): hisat2-align died with signal 6 (ABRT)
when I go looking at such V300055969L2C002R0400381671/1 read into the specific fastq file, it looks like this:
+ FFFFFFBFF>FEFFFAGFFG=GGGFDGDGGGEDFEFFFCFCGCGFFFGGFCFFGEEG2BGG<[email protected]<FGEGF @V300055969L2C002R0400381671/1 CATGGAAAAGGTTTTCAGCCCTAGTGGGTTTTGCTGGTTGAACTGGAGGCTGCCCAGAGGAGACAGTGAGGCTCCATTTACGACTCAGCGATCCAAGAGA +
It's the first time I encountered an error like this and I am not sure what is the cause. I also tried to re-download the file but nothing changed.
Hope some of you can explain to me what is possibly wrong. I would be very grateful!