Fig. 2

The microsatellite region (36 nucleotides in length) in the reference sequence is shown in bold. PSR selects and counts only reads aligning the entire SSR region, in addition to one or more nucleotides to the left and right side different from bases in the repetitive units. Reads in grey are discarded since they partially cover the microsatellite. Reads in red are filtered out due to the uncertainty at the sequence borders. For each sample the program returns the number of repetitive units presenting coverage greater than the selected threshold (−p) in a tab delimited file