Table 5. Identified gaps or weak overlaps (less than 6 nucleotides) between populations of gRNAs observed in both data sets.

Gene	Stage Missing Coverage	Rangeb	Gap or Overlap	Abundance of Equivalent gRNA
A6	Bloodstream	669–670	2 nt Gap	39,063
CR3	BS/Pa	233/226-230	1 nt G/5 nt O	Missing in Both Stages
CR3	Procyclic	278–292	15 nt Gap	125
CR4	Bloodstream	143–165	23 nt Gap	7,175
CR4	Bloodstream	302–306	5 nt Gap	643
MurfII	BS/P	80–85	6 nt Gap	Missing in Both Stages
ND3	BS/P	389–401	13 nt Gap	Missing in Both Stages
ND7	BS/P	92–94	3 nt Gap	Missing in Both Stages
ND7	Bloodstream	95–120	26 nt Gap	1
ND7	Bloodstream	292–293	2 nt Overlap	3,259
ND7	Bloodstream	325–326	2 nt Gap	888
ND7	BS/P	485–486	0 nt Overlap	Missing in Both Stages
ND7	Bloodstream	1000–1000	1 nt Overlap	101
ND7	Bloodstream	1079–1085	7 nt Gap	44
ND7	BS/P	1086/1086-1088	1 nt G/3 nt G	Missing in Both Stages
ND7	Bloodstream	1225–1232	8 nt Gap	123
ND7	Bloodstream	1269–1270	2 nt Overlap	63
ND8	Bloodstream	54–56	3 nt Overlap	1
ND8	Bloodstream	153–159	7 nt Gap	4
ND8	Bloodstream	386–389	4 nt Gap	2
ND8	Procyclic	541–553	13 nt Gap	413
ND9	Procyclic	238–242	5 nt Overlap	652
ND9	Bloodstream	340–342	3 nt Gap	36
ND9	Procyclic	609–612	4 nt Overlap	7
RPS12	Bloodstream	122–132	11 nt Gap	3
RPS12	Bloodstream	156–158	3 nt Overlap	62
RPS12	Bloodstream	337–349	13 nt Gap	128

^aIndicates that the region of poor coverage was identified in both data sets.

^bRange is respective nucleotides in the fully edited mRNA. Both nucleotides and deletion sites in the fully edited mRNA were numbered starting from the 5’ end (see S2 Fig for numbered sequences).