Figure 4
The igBlast alignment of a Prime Motif matching subsequence with its germline origin. The subsequence includes all three motif components; TNE, DTA, and CAR. These components have been highlighted in red. The nucleotide contents of the queried input sequence are listed on the line marked Query_DNA. The proper amino acid translation of the query is included on the line marked Query_AA. The third line, labeled as Germ_DNA, features an alignment between the query nucleotides and the germline sequence IGHV3-53. Each dot in that alignment represents a nucleotide that has not mutated from the germline origin. The line as marked as Germ_AA contains the amino acid translation of the germline nucleotides. Based on the alignment, the query is identical to the germline, except for a single insertion and a single deletion. These indels, which are highlighted in blue, serve as endpoints of components TNE and DTA. The indels result in a localized reading frame shift, which transforms the germline subsequence QMNSLRAEDTA (highlighted in purple) into a Prime Motif associated subsequence TNEQPESRDTA.
