SF3B1 and B-cell chronic lymphocytic leukemia: Given that SF3B1 mutations can subtly alter 3′ splice-site choice17–19,22 and accurate representation of splice-site usage is crucial, we increased splice-site accuracy by correcting read alignments using splice sites in either annotations or matched CLL short-read sequencing (Fig. 2a, Supplementary Fig. 3c, d).