Fig. 4

Representation of the IMDA output of the undetermined reads. All reads are assigned to one of the following five groups: PhiX, TCR junk, Low quality, Junk reads (which contains reads with consecutive nucleotides in unexpectedly high number) and the group Other, whose reads cannot be assigned to one of the other groups. The non-assignable reads within this group Other are stored in a FASTQ file providing the possibility for further analysis using, e.g., BLASTn or other sequence alignment tools