Table 8.

Day 30 post-denervation alignments.

	CTL-30-1	CTL-30-2	CTL-30-3	CTL-30-4	DN-30-1	DN-30-2	DN-30-3	DN-30-4
Number of input reads	52,742,878	46,463,403	57,501,219	60,468,553	73,590,727	48,399,322	51,665,579	54,577,655
Average input read length	138	138	138	138	138	138	138	138
Number of uniquely mapped reads	40,308,924	38,146,896	48,521,247	49,438,872	58,520,852	41,879,303	45,337,494	46,751,912
Uniquely mapped reads (%)	76.43	82.10	84.38	81.76	79.52	86.53	87.75	85.66
Average mapped length	137.26	137.46	137.68	137.65	137.6	137.5	137.65	137.55
Number of splices: Total	9,002,164	12,162,162	17,453,824	21,318,005	19,800,202	14,238,822	17,245,138	17,175,362
Number of splices: Annotated (sjdb)	8,779,541	11,999,102	17,264,634	21,090,387	19,528,567	14,056,750	17,044,059	16,948,110
Number of splices: GT/AG	8,902,807	12,063,473	17,319,770	21,157,409	19,623,217	14,122,315	17,105,745	17,027,539
Number of splices: GC/AG	50,013	69,863	105,703	125,956	132,947	88,561	112,478	111,959
Number of splices: AT/AC	4,129	5,439	7,989	9,587	11,133	6,876	8,957	9,017
Number of splices: Non-canonical	45,215	23,387	20,362	25,053	32,905	21,070	17,958	26,847
Mismatch rate per base (%)	0.41	0.34	0.18	0.18	0.21	0.23	0.16	0.22
Deletion rate per base	0.01	0.00	0.00	0.00	0.00	0.00	0.00	0.00
Deletion average length	1.35	1.54	1.52	1.54	1.59	2.1	1.61	1.85
Insertion rate per base	0.00	0.00	0.00	0.00	0.00	0.01	0.00	0.01
Multi-Mapping Reads:
Number of reads mapped to multiple loci	7,401,284	5,478,248	6,190,600	8,046,293	8,580,950	4,181,432	4,632,180	5,281,885
% of reads mapped to multiple loci	14.03	11.79	10.77	13.31	11.66	8.64	8.97	9.68
Number of reads mapped to too many loci	1,771,867	704,627	353,874	396,886	672,558	312,239	158,758	369,051
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	4.84	3.82	3.70	3.98	7.27	3.68	2.63	3.59