Download output files

You can download the library files for unaligned and aligned reads in BAM or BAI file formats.

In the Data tab, click Completed Runs & Reports.
In the list of runs, find the run of interest, then click the link in the Report Name column.

In the left navigation menu, click Output Files or scroll to the Output Files section, then click a file type to download the following files:

Option	Description
Unaligned Reads	Nucleotide bases covered by reads that have not been aligned to the reference. Can be downloaded as a binary aligned/mapped (BAM) file.
Aligned Reads	Number of bases covered by reads that have been aligned to the reference. Can be downloaded as a BAM or binary aligned/mapped index (BAI) file.