RNA-Seq of Oreochromis hindgut
Raw reads in FASTQ format were first processed through in-house Perl scripts. To obtain clean reads, the reads that contain adapter sequences, reads with ambiguous N and low-quality reads (>50% of reads with a quality score Q-value  20) were removed from the raw reads. The clean reads Q20, Q30 and GC content were calculated, and all the downstream analyses relied on the clean reads.