HISAT2 summary stats: Total pairs: 28242317 Aligned concordantly or discordantly 0 time: 3044843 (10.78%) Aligned concordantly 1 time: 23616061 (83.62%) Aligned concordantly >1 times: 1581413 (5.60%) Aligned discordantly 1 time: 0 (0.00%) Total unpaired reads: 6089686 Aligned 0 time: 6089686 (100.00%) Aligned 1 time: 0 (0.00%) Aligned >1 times: 0 (0.00%) Overall alignment rate: 89.22%