TABLE 3.

Predicted Ψ guide assignments

Target	ID	h	Pr	snoGPS-C score	Rk	Hs pScore	Mm pScore	Rn pScore
18S-rRNA
Ψ34	ACA62	5	HK	60.84	1	10.0	10.5	10.5
Ψ36	ACA55	5	G	45.40	1	11.0	11.0	14.5
Ψ105	ACA62	3	K	64.99	1	12.0	12.0	12.0
Ψ109	ACA67	3	K	49.58	1	11.0	11.0	11.0
Ψ572	ACA67	5	K	48.79	1	9.0	10.0	9.0
Ψ814	ACA63	5	HK	53.64	1	8.7	12.0	12.0
Ψ863	MBI51 ACA19	5	HK	36.48	2	12.0	12.0	12.0
Ψ1004	U99	5	K	41.03	1	11.0	11.0	11.0
Ψ1174	MBI142 ACA40	3	—	45.65	2	11.0	9.0	11.0
23S-rRNA
Ψ3791	ACA54	5	—	49.78	1	9.7	9.7	9.7
Ψ3822	ACA8	3	G	38.22	3	10.0	10.0	10.0
Ψ4272	ACA2 MBI137	3	K	50.14	1	9.0	9.0	9.0
Ψ4321	ACA64	3	K	47.51	1	10.0	10.0	10.0
Ψ4596	MBI61	5	—	44.98	1	10.0	10.0	10.0
Ψ4927	MBI31 ACA17	3	K	46.42	2	10.0	10.0	10.0
Ψ4965	ACA22	3	G	40.60	2	10.2	9.5	9.5
snRNAs
U2Ψ7	U100	3	—	37.67	1	9.0	9.0	9.0
U3Ψ8	U19	3	—	46.15	1	12.5	13.0	13.5
U5Ψ53	U93	5	—	53.60	1	9.0	9.0	9.0
U6Ψ31	ACA65	5	—	52.18	1	10.5	10.0	11.0
U6Ψ86	ACA65	3	—	52.92	1	13.0	12.0	12.0
U12Ψ19	ACA68	5	—	57.44	1	10.0	10.0	10.0
U12Ψ28	ACA66	3	—	47.95	1	11.0	7.7	10.0

For each Ψ guide assignment, the Ψ-site and the guide H/ACA RNA are listed. The column marked “h” indicates the H/ACA hairpin (5′ or 3′) that includes the predicted guide sequence. The “Pr” column indicates whether a different predicted assignment for the Ψ has been previously published: (G) Ganot et al. 1997; (H) Huttenhofer et al. 2001; (K) Kiss et al. 2004. The snoGPS-C score, the rank of that score for that site within the hmr20 data set (“Rk”), and the pair-scores in human (Hs), mouse (Mm), and rat (Rn) are also shown.