Results of the comparisons of leading spliced aligners.

Table 2: Results of the comparisons of leading spliced aligners.

Software	Number of Sample	Total Mapped (%)	1 Place Mapped (%)	More Than 1 Place Mapped (%)
Hisat2	2045	92.536 (1.348)^b	89.222 (1.456)^a	3.314 (0.762)^a
Tophat	2045	94.108 (1.315)^a	87.832 (1.440)^b	6.276 (0.494)^b
STAR	2045	86.332 (1.314)^c	74.477 (1.055)^c	11.855 (0.667)^c
Bowtie2	2045	69.698 (1.318)^d	53.891 (1.035)^d	15.807 (1.356)^d
SEM		0.320	0.325	0.230

Percentage of total mapped, 1 place mapped and more than 1 place mapped of leading spliced aligners for 2045 samples from the GEO data bases. a,b,c,dValues with different superscripts within the same column differ significantly.