Table 3.

Definitions and oft used values/initial values of variables, functions, and parameters for the simulation model

Symbol	Definition	Value
R	Resource concentration	350 μg/ml
B i	Population size of CRISPR+ bacterial strain i	106
P i	Population size of phage strain i	106
B u	Population size of CRISPR− bacteria	102
	Mutation rate of bacterial strain i	n/a
	PAM mutation rate of phage strain i	n/a
	PAM back mutation rate of phage strain i	n/a
λ	Total rate of mutation events occurring in model	n/a
M(XiYj)	Matching function between spacer set of bacterial strain i and protospacer set of phage strain j	no matches initially
β(|Yi|)	Burst size as a function of the order of phage strain i	β(0)=80
|Xi|	Order of bacterial strain i	0
|Yi|	Order of phage strain i	0
e	Resource consumption rate of growing bacteria	5 × 10-7μg
v	Maximum bacterial growth rate	1.4/hr
z	Resource concentration for half-maximal growth	1 μg
δ	Adsorption rate	10−8 ml per cell per phage per hr
β base	Maximum burst size	80 particles per infected cell
n s	Size of phage genome	10 protospacers
c	Cost weight per PAM mutation	3
μ L	Per individual per generation CRISPR inactivation/loss rate	5 × 10−4
α	Rate of autoimmunity	50 μb deaths per individual per hr
μ b	Spacer acquisition rate	5 × 10−7 acquisitions per individual per hr
μ p	Per-protospacer PAM mutation rate	5 × 10−8 mutations per spacer per individual per hr
μ q	PAM back mutation rate	5 × 10−9 mutations per spacer per individual per hr