Supplementary Figure 3: Effect of the requirement for identical V-D and D-J junctions on the clonal identification metric.
(a) Alignment of a sample of VH sequences from the top FLU 4 CD138- ASC clone defined in Supplementary Fig. 2a using a requirement of 85% HCDR3 identity. Consistent with a shared clonal origin, this alignment demonstrates both shared as well as unique mutations in a step-wise fashion within VH rearrangements that share a highly conserved HCDR3 including conserved VH-D junction. However, the added requirement of complete conservation of both the VH-D and D-JH junction splits these sequences into 3 separate clones. Red indicates base differences from germline VH4-38 and differences within the clonally related HCDR3 sequences. (b) Alignments of example sequences from each of the lineages in a, focusing on CDR3 and surrounding region to illustrate the degree of HCDR3 and junctional conservation.
