[bwa_index] Pack FASTA... 0.00 sec
[bwa_index] Construct BWT for the packed sequence...
[bwa_index] 0.01 seconds elapse.
[bwa_index] Update BWT... 0.00 sec
[bwa_index] Pack forward-only FASTA... 0.00 sec
[bwa_index] Construct SA from BWT and Occ... 0.01 sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa index db/AF086833.fa
[main] Real time: 0.345 sec; CPU: 0.012 sec
[wgsim] seed = 1540823658
[wgsim_core] calculating the total length of the reference sequence...
[wgsim_core] 1 sequences, total length: 18959
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 5000 sequences (350000 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 2500, 0, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (467, 500, 535)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (331, 671)
[M::mem_pestat] mean and std.dev: (500.41, 49.56)
[M::mem_pestat] low and high boundaries for proper pairs: (263, 739)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 5000 reads in 0.056 CPU sec, 0.059 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem db/AF086833.fa pair1.fq pair2.fq
[main] Real time: 0.070 sec; CPU: 0.064 sec
[wgsim] seed = 1540823658
[wgsim_core] calculating the total length of the reference sequence...
[wgsim_core] 1 sequences, total length: 17960
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 5000 sequences (350000 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 2500, 0, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (467, 499, 534)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (333, 668)
[M::mem_pestat] mean and std.dev: (498.84, 48.45)
[M::mem_pestat] low and high boundaries for proper pairs: (266, 735)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 5000 reads in 0.072 CPU sec, 0.071 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem db/AF086833.fa pair1.fq pair2.fq
[main] Real time: 0.081 sec; CPU: 0.072 sec
[wgsim] seed = 1540823659
[wgsim_core] calculating the total length of the reference sequence...
[wgsim_core] 1 sequences, total length: 22959
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 5000 sequences (350000 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 2411, 89, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (466, 499, 534)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (330, 670)
[M::mem_pestat] mean and std.dev: (500.31, 49.58)
[M::mem_pestat] low and high boundaries for proper pairs: (262, 738)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (1458, 1492, 1529)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1316, 1671)
[M::mem_pestat] mean and std.dev: (1492.64, 51.05)
[M::mem_pestat] low and high boundaries for proper pairs: (1245, 1742)
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_pestat] skip orientation RF
[M::mem_process_seqs] Processed 5000 reads in 0.068 CPU sec, 0.066 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem db/AF086833.fa pair1.fq pair2.fq
[main] Real time: 0.075 sec; CPU: 0.068 sec
[wgsim] seed = 1540823659
[wgsim_core] calculating the total length of the reference sequence...
[wgsim_core] 1 sequences, total length: 18960
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 5000 sequences (350000 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 2445, 0, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (465, 499, 531)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (333, 663)
[M::mem_pestat] mean and std.dev: (498.16, 49.86)
[M::mem_pestat] low and high boundaries for proper pairs: (267, 729)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 5000 reads in 0.060 CPU sec, 0.059 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem db/AF086833.fa pair1.fq pair2.fq
[main] Real time: 0.070 sec; CPU: 0.064 sec
[wgsim] seed = 1540823659
[wgsim_core] calculating the total length of the reference sequence...
[wgsim_core] 1 sequences, total length: 18961
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 5000 sequences (350000 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (58, 2377, 0, 65)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (747, 993, 1153)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1965)
[M::mem_pestat] mean and std.dev: (977.41, 248.85)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 2371)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (467, 499, 535)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (331, 671)
[M::mem_pestat] mean and std.dev: (500.73, 49.65)
[M::mem_pestat] low and high boundaries for proper pairs: (263, 739)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (857, 1047, 1241)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (89, 2009)
[M::mem_pestat] mean and std.dev: (1034.15, 238.80)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 2393)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 5000 reads in 0.064 CPU sec, 0.062 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem db/AF086833.fa pair1.fq pair2.fq
[main] Real time: 0.072 sec; CPU: 0.064 sec
[wgsim] seed = 1540823659
[wgsim_core] calculating the total length of the reference sequence...
[wgsim_core] 1 sequences, total length: 19508
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 5000 sequences (350000 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 2327, 87, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (456, 496, 534)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (300, 690)
[M::mem_pestat] mean and std.dev: (490.59, 55.25)
[M::mem_pestat] low and high boundaries for proper pairs: (222, 768)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (2449, 2510, 5543)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 11731)
[M::mem_pestat] mean and std.dev: (3748.21, 1681.05)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 14825)
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_pestat] skip orientation RF
[M::mem_process_seqs] Processed 5000 reads in 0.068 CPU sec, 0.069 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem db/AF086833.fa pair1.fq pair2.fq
[main] Real time: 0.079 sec; CPU: 0.072 sec