Split FASTQ file to FASTA and QUAL files


Given a FASTQ file, extracts sequences to FASTA file and base qualities to QUAL file. Provides also summary information on the sequences.




In addition to FASTA and QUAL files, this tool provides summary statistics on sequence length, number of ambiguous bases, and homopolymer length.

This tool is based on the Fastq.info command of the Mothur package.


The analysis output consists of the following:


Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF. Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.