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A Post-alignment QA/QC task node will be generated (Figure 2). 

• Double-click the Post-alignment QA/QC task node to view the task report

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The top two graphs in the data set view (Figure 3) show the alignment breakdown and coverage. 

From these graphs, we can see that more than 95% of reads were aligned, but the total number of reads for each sample varies. Normalizing for the variability in total read counts will be address addressed in a later section of the tutorial. 

For more information about the graphs and information presented in the Post-alignment QA/QC task report, see the Post-alignment QA/QC user guide. 

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