AH, ok, that helps. I had forgotten that the data for this tutorial has dummy (padded) quality scores in the fastq data. It isn’t appropriate data to learn how to use FastQC.
The tutorial is a bit older and also uses Tophat, which has since been deprecated and usually works but sometimes not. The utility of keeping the tutorial active is to review a few basic Galaxy UI functions and how RNA-seq analysis works in general, rather than being a complete workflow with sample data to model after for a complete analysis.
I would suggest either following that tutorial exactly to learn how to use collections and the other basics included. Or, you can skip that tutorial and try the other one listed right below it at Learn & Teach Galaxy - Galaxy Community Hub. It includes QA steps, the right type of example data, the mapping tool HISAT2 (replaces Tophat), and will work at Galaxy Main https://usegalaxy.org.
- RNA-seq: Discovering and quantifying new transcripts - an in-depth transcriptome analysis example.
Then you can explore the RNA-seq and other tutorials from the GTN.
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