The design and evaluation of probes used to detect a 104 bp genome deletion. (A) A schematic showing the location of the 104 bp phyB deletion in the E124 A. thaliana mutant line. Also shown, an enlarged view of the 17 bp staggered probes designed to cover the deletion region. Nine probes cover the 104 bp deletion either fully (red filled boxes) or partially (black and red filled boxes). (B) A total of eight of the nine probes (89%; labelled 2 to 9) that covered the deletion region showed a typical deletion profile (normalized hybridization signal log2 ratio of less than −0.4 (dashed line)). One probe (number 1) had a log2 ratio value higher (−0.10506) than the −0.4 threshold.