Table 2 The Pearson correlations of six off-target scoring methods with the experimentally measured genome-wide off-target activities.

Target	# of off-targets	CROP-it	CCTop	Zhang’s model	CFD	SMA_none	SMA_para
From Hsu et al.¹⁹
EMX1.1	9	0.799	−0.402	0.974	0.979	0.998	0.981
EMX1.3	33	0.227	−0.18	0.221	0.723	0.552	0.889
From Kuscu et al.²⁹
sgRNA1	50	0.327	−0.288	0.698	0.788	0.789	0.851
sgRNA2	17	0.466	−0.234	0.532	0.911	0.632	0.744
sgRNA3	41	0.195	−0.194	0.462	0.908	0.891	0.976
sgRNA4	484	0.077	−0.046	0.072	0.135	0.094	0.501
sgRNA5	52	0.343	−0.134	0.088	0.749	0.859	0.872
sgRNA6	1282	0.064	−0.026	0.228	0.251	0.233	0.301
sgRNA7	285	0.14	−0.039	0.614	0.673	0.216	0.639
sgRNA8	43	0.543	−0.171	0.641	0.812	0.548	0.501
sgRNA9	121	0.331	−0.062	0.825	0.804	0.861	0.812
sgRNA10	202	0.124	−0.169	0.773	0.76	0.777	0.579
sgRNA11	16	0.474	−0.148	0.643	0.649	0.642	0.628
sgRNA12	14	0.818	−0.009	0.82	0.832	0.818	0.818
From Tsai et al.³⁰
VEGFA(1)	22	0.448	−0.556	0.068	0.819	0.469	0.613
VEGFA(2)	151	0.298	−0.289	0.499	0.434	0.649	0.501
VEGFA(3)	60	0.332	−0.196	0.189	0.542	0.514	0.661
EMX1	16	0.352	−0.29	0.595	0.723	0.694	0.689
FANCF	9	0.375	−0.589	0.366	0.927	0.813	0.776
HEK293(4)	134	0.259	−0.131	0.404	0.379	0.177	0.501
From Wu et al.¹¹
Nanog-sg2	26	0.294	−0.335	0.428	0.808	0.311	0.502
Nanog-sg3	5957	0.065	−0.123	0.067	0.078	0.082	0.209
Phc1-sg1	2948	0.179	−0.263	0.163	0.207	0.176	0.342
Phc1-sg2	663	0.199	−0.168	0.245	0.271	0.186	0.394
Success rate*		3/24	2/24	10/24	17/24	14/24	20/24

Here, SMA_none, and SMA_para are the predicted scores (populations) from our statistical mechanical analysis (SMA)-based model without and with additional parameters, respectively. The experimental data is from the published papers.
*Percentage of cases that show high (>0.5) correlation.

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