RevertToGermline analysis options. The junction decomposition of a representative heavy chain sequence is shown alongside the three inference options available from RevertToGermline. In the first (V), whole codons in the V-region are reverted to the inferred germline, and other regions are gapped out. In the second (VDJ), whole codons in the D- and J-regions are also reverted to their inferred germlines. In the third (full) option, remaining nucleotides are carried into the inferred germline from the original sequence.