Fig. 2

SV-STAT is more accurate than alternative methods for determining base-pair resolved breakpoints of translocations given unpaired Roche/454 sequencing data simulated from DNA fusions previously reported in pre-B ALL cases. Samples are arrayed in rows colored for translocations t(4;11) (green), t(1;19) (purple), t(9;22) (orange), and t(12;21) (blue). The first three columns are predictions of SVs from R453Plus1Toolbox [15], CREST [14], and SV-STAT. Grey indicates a false negative, or non-predicted translocation. A color with an “X” through it indicates a false positive, or wrongly-predicted translocation. Columns of boxplots indicate support (log10(S)) for candidate junctions, one column per type of SV. Black vertical dashes indicate median, rectangles indicate the interquartile (25–75 %) range, and upper and lower whiskers represent the boundaries of the 90 % and 10 % percentiles, respectively. Shaded regions indicate sufficient support for SV-STAT to predict SVs