HISAT2 summary stats: Total pairs: 25291362 Aligned concordantly or discordantly 0 time: 2737434 (10.82%) Aligned concordantly 1 time: 20567044 (81.32%) Aligned concordantly >1 times: 1561723 (6.17%) Aligned discordantly 1 time: 425161 (1.68%) Total unpaired reads: 5474868 Aligned 0 time: 3805293 (69.50%) Aligned 1 time: 1467835 (26.81%) Aligned >1 times: 201740 (3.68%) Overall alignment rate: 92.48%