Why Deletion Less Than 1Kbp Is Indel ?

Question

[jack]

Dose anybody knows why deletion less than 1kbp are considered as INDEL and how this threshold related to paired end sequencing technology ?

Answer 1

[Chris Miller]

"Indel" is simply short for "insertion or deletion". There's no absolute defining line between large and small deletions, but the techniques used to find them often differ substantially, based on limitations of the technology, including the length of reads, alignment strategies, insert sizes in paired end reads, and sequencing depth for read-depth approaches.