Table 7.

Day 14 post-denervation alignments.

	CTL-14-1	CTL-14-2	CTL-14-3	CTL-14-4	DN-14-1	DN-14-2	DN-14-3	DN-14-4
Number of input reads	49,441,646	69,876,924	57,832,497	47,973,299	55,891,429	44,966,509	59,715,016	54,942,368
Average input read length	138	138	138	138	138	138	138	138
Number of uniquely mapped reads	36,913,926	57,899,595	48,950,623	38,979,826	46,402,585	39,850,074	51,086,876	47,212,433
Uniquely mapped reads (%)	74.66	82.86	84.64	81.25	83.02	88.62	85.55	85.93
Average mapped length	136.42	137.57	137.64	137.71	137.43	137.6	137.26	137.64
Number of splices: Total	5,674,228	21,316,991	17,945,548	18,202,915	14,603,778	13,578,938	17,163,851	19,981,473
Number of splices: Annotated (sjdb)	5,507,058	21,070,682	17,756,782	18,029,158	14,378,276	13,404,598	16,946,761	19,745,905
Number of splices: GT/AG	5,594,717	21,157,480	17,811,041	18,071,861	14,465,582	13,467,591	17,016,218	19,822,262
Number of splices: GC/AG	33,738	117,529	105,892	108,309	97,389	86,275	114,337	126,876
Number of splices: AT/AC	2,460	8,933	7,681	8,376	8,415	7,229	9,540	11,690
Number of splices: Non-canonical	43,313	33,049	20,934	14,369	32,392	17,843	23,756	20,645
Mismatch rate per base (%)	0.66	0.22	0.19	0.15	0.23	0.21	0.30	0.17
Deletion rate per base	0.01	0.00	0.00	0.00	0.00	0.00	0.00	0.00
Deletion average length	1.96	1.53	1.49	1.54	1.6	1.73	1.77	1.81
Insertion rate per base	0.02	0.00	0.00	0.00	0.00	0.00	0.00	0.00
Multi-Mapping Reads:
Number of reads mapped to multiple loci	6,729,802	8,099,802	6,448,816	6,968,357	5,711,963	3,266,255	5,086,857	5,109,283
% of reads mapped to multiple loci	13.61	11.59	11.15	14.53	10.22	7.26	8.52	9.30
Number of reads mapped to too many loci	1,288,797	704,083	369,246	131,113	711,573	285,356	277,105	152,218
Unmapped Reads:
% of reads unmapped: too many mismatches	0.00	0.00	0.00	0.00	0.00	0.00	0.00	0.00
% of reads unmapped: too short	7.92	3.98	2.99	3.77	4.72	2.93	4.97	4.27