actually Illumina 1.8+ has one more quality value higher than fastqsanger (see )

my question now I guess is if I use fastqsanger would it break anything when it encounters the 'J' in the qual values?

On Tue, Oct 18, 2011 at 5:10 PM, Peter Cock <> wrote:
On Tue, Oct 18, 2011 at 9:21 AM, arabidopsis <> wrote:
> If Illumina 1.8+ is already using the Sanger FASTQ encoding, the file should
> be recognized by downstream applications, like Quality statistics computer,
> quality filter etc. However, my file is not visible by those programs and
> when I click on it, only "uploaded fastq file" is displayed, without
> encoding details.
> S.