[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 555558 sequences (80000050 bp)...
[M::process] read 555558 sequences (80000029 bp)...
[M::mem_process_seqs] Processed 555558 reads in 163.956 CPU sec, 20.460 real sec
[M::process] read 555560 sequences (80000178 bp)...
[M::mem_process_seqs] Processed 555558 reads in 167.811 CPU sec, 20.604 real sec
[M::process] read 555560 sequences (80000205 bp)...
[M::mem_process_seqs] Processed 555560 reads in 168.082 CPU sec, 20.668 real sec
[M::process] read 555558 sequences (80000116 bp)...
[M::mem_process_seqs] Processed 555560 reads in 167.375 CPU sec, 20.598 real sec
[M::process] read 555558 sequences (80000035 bp)...
[M::mem_process_seqs] Processed 555558 reads in 167.470 CPU sec, 20.572 real sec
[M::process] read 555558 sequences (80000026 bp)...
[M::mem_process_seqs] Processed 555558 reads in 168.021 CPU sec, 20.637 real sec
[M::process] read 184663 sequences (26591373 bp)...
[M::mem_process_seqs] Processed 555558 reads in 166.935 CPU sec, 20.583 real sec
[M::mem_process_seqs] Processed 184663 reads in 58.724 CPU sec, 7.112 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_Q326\tSM:SewardAK_Q326\tPL:Illumina reference.fasta SewardAK_Q326.R1.fq.gz
[main] Real time: 154.307 sec; CPU: 1230.490 sec