[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 556122 sequences (80000096 bp)...
[M::process] read 556174 sequences (80000114 bp)...
[M::mem_process_seqs] Processed 556122 reads in 170.533 CPU sec, 21.233 real sec
[M::process] read 556130 sequences (80000076 bp)...
[M::mem_process_seqs] Processed 556174 reads in 173.007 CPU sec, 21.250 real sec
[M::process] read 168015 sequences (24164051 bp)...
[M::mem_process_seqs] Processed 556130 reads in 173.103 CPU sec, 21.364 real sec
[M::mem_process_seqs] Processed 168015 reads in 55.426 CPU sec, 6.701 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem -L 20,5 -t 8 -a -M -T 10 -A 1 -B 4 -O 6 -R @RG\tID:SewardAK_311\tSM:SewardAK_311\tPL:Illumina reference.fasta SewardAK_311.R1.fq.gz
[main] Real time: 73.178 sec; CPU: 574.178 sec