Self-fertile PRUNUS: Approximately how much of the genome gets rearranged by meiosis?
It makes little sense to give a percentage of the genome impacted by recombination and segregation. I think you should read about segregation and recombination and that would be clear to you why giving a percentage makes little sense.

Segregation

Segregation causes that the two haplogroups of the parent can be rearrange at the among chromosome level. So, for example if, in this lineage, each individual has 3 pairs of chromosomes. Let's denote each haplogroup by a capitalize vs non-capitalize letter, we can represent the genome as

a|A b|B c|C


Without segregation (and recombination), a parent could only transmit either

a b c


or 

A B C


in a given gamete. This results in the three possible zygotes

a|A b|B c|C
a|a b|b c|c
A|A B|B C|C


segregation allows the creation of gametes like for example

A b C


resulting in possible zygotes such as for example

A|a B|B c|C


Recombination

Recombination typically occurs at a rate of one recombination event per chromosome (that is 100 centiMorgan per chromosome as a rule of thumb; see here to understand what a centiMorgan is). Further rearrange creating new haplogroup from the two existing haplogroups. So for example, from the pair of chromosome

A|a


an individual could create a new haplogroup from recombining the end of A with the beginning of a (or vice-versa).

Related posts

There are probably a lot of related posts. Here are a few of them:


Do only one or both pairs of homologous chromatids exchange genetic material during the process of crossing over?
Gene distance and Recombination Frequency: Mechanism
Is the discovery of dominant and recessive genes the only reason Mendel matters?
What is Mendelian Segregation and how is it related to the Hardy-Weinberg equilibrium?
Genetic linkage greater than 50 centimorgans
What are the exceptions of Mendel's laws?