Fig. 3
From: Birth, expansion, and death of VCY-containing palindromes on the human Y chromosome
Tandem duplication of part of a palindrome. a, b Fiber-FISH image for HG02390 showing an additional copy of the short red, green+pink, and long red signals, and genomic structure. c Loupe file showing increased read depth in distal P8 and a long section of distal flanking sequence, with a junction at the location of the black arrow. d Breakpoint PCR amplifies a fragment in HG02390, but not in HG03006. e The top and bottom sections show two regions of the reference sequence with sections detected in the breakpoint PCR sequence in upper case blue. The middle section shows Sanger sequence traces from the breakpoint PCR product, each ending before the breakpoint in a T- or A-stretch. f The middle section shows a 10x Genomics sequencing read spanning the breakpoint and linking the two breakpoint Sanger sequence traces in e, revealing a recombination between the sequences in the upper and lower sections at the orange TC microhomology breakpoint