HNF1A and alkaline phosphatase measurement: Three of the eleven CML patients showed subclones with sequence variants in the HNF1A gene (Fig 4), including a S304P variant in one CML-CP and one CML-AP sample (both 9% of all reads) and one 872delC mutation (6%) in a further CML-CP patient, but due to low allele burden we were not able to validate this variants by conventional Sanger Sequencing.