What does the breakpoint sequence mean?

Question

[zhangz.cs]

I'm working on the detection of SV and encounter a new concept, i.e. the breakpoint sequence. Would anyone explain it in a bit more details? It would be better to give some examples for that?

Thank you in advance!

Regards,
Zhen

Answer 1

[rbagnall]

Examples of a structural variation include a large deletion, insertion, duplication and inversion. Each requires the DNA duplex to be broken and rejoined, and this creates a new sequence of bases at the rejoined sites, i.e. the breakpoints.

Sequencing the new breakpoint regions is a good way (perhaps the only way?) to demonstrate an inversion, which does not increase or decrease the amount of DNA.

Original sequence: 123456789

Sequence with inversion: 123765489

Breakpoint sequences are at 37 and 48