python /illumina/software/Survirus/SurVirus-master/surveyor.py /illumina/Projects/TEST_VIRIUS/Rawdata/L526401A/L526401A_R1.fastq.gz,/illumina/Projects/TEST_VIRIUS/Rawdata/L526401A/L526401A_R2.fastq.gz /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa --fq --threads 10 --dust /illumina/software/sdust/sdust-0.1/sdust
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 200000 sequences (9997717 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (115, 70565, 15, 75)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (40, 78, 431)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1213)
[M::mem_pestat] mean and std.dev: (166.03, 233.64)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1604)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (150, 239, 1155)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3165)
[M::mem_pestat] mean and std.dev: (569.52, 703.84)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4170)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (73, 122, 474)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1276)
[M::mem_pestat] mean and std.dev: (140.75, 135.71)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1677)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 86, 502)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1430)
[M::mem_pestat] mean and std.dev: (202.61, 319.11)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1894)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 200000 reads in 71.489 CPU sec, 7.320 real sec
[main] Version: 0.7.15-r1140
[main] CMD: bwa mem -t 10 /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/head_1.fq /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/head_2.fq
[main] Real time: 40.740 sec; CPU: 88.767 sec
Executing: /illumina/software/Survirus/SurVirus-master/isolate_relevant_pairs_fq /illumina/Projects/TEST_VIRIUS/Rawdata/L526401A/L526401A_R1.fastq.gz /illumina/Projects/TEST_VIRIUS/Rawdata/L526401A/L526401A_R2.fastq.gz /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/
Executing: bwa mem -t 10 /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//retained-pairs_1.fq /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//retained-pairs_2.fq | samtools view -b -F 2304 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//retained-pairs.remapped.bam
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 2000278 sequences (100000089 bp)...
[M::process] read 2000282 sequences (100000047 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1066, 705906, 150, 862)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 77, 253)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 687)
[M::mem_pestat] mean and std.dev: (103.40, 128.12)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 904)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (150, 237, 1133)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3099)
[M::mem_pestat] mean and std.dev: (558.17, 688.70)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4082)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (15, 141, 689)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2037)
[M::mem_pestat] mean and std.dev: (290.20, 411.80)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 2711)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 86, 258)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 698)
[M::mem_pestat] mean and std.dev: (104.35, 119.47)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 918)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 2000278 reads in 658.228 CPU sec, 67.109 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1080, 705580, 200, 927)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (33, 71, 190)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 504)
[M::mem_pestat] mean and std.dev: (83.22, 87.69)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 661)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (149, 235, 1120)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3062)
[M::mem_pestat] mean and std.dev: (551.60, 680.15)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4033)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (40, 243, 1279)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3757)
[M::mem_pestat] mean and std.dev: (589.58, 770.25)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4996)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 83, 267)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 723)
[M::mem_pestat] mean and std.dev: (103.86, 123.73)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 951)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000272 sequences (100000015 bp)...
[M::mem_process_seqs] Processed 2000282 reads in 671.599 CPU sec, 67.794 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1056, 705565, 191, 962)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 78, 211)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 561)
[M::mem_pestat] mean and std.dev: (87.83, 92.00)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 736)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (148, 233, 1104)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3016)
[M::mem_pestat] mean and std.dev: (544.70, 670.73)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3972)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (32, 232, 1446)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 4274)
[M::mem_pestat] mean and std.dev: (631.07, 837.68)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 5688)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 82, 271)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 739)
[M::mem_pestat] mean and std.dev: (108.75, 133.74)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 973)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000294 sequences (100000035 bp)...
[M::mem_process_seqs] Processed 2000272 reads in 670.427 CPU sec, 67.304 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1099, 705819, 214, 984)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 71, 202)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 536)
[M::mem_pestat] mean and std.dev: (87.59, 92.84)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 703)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (148, 232, 1101)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3007)
[M::mem_pestat] mean and std.dev: (541.86, 668.44)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3960)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (26, 225, 1027)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3029)
[M::mem_pestat] mean and std.dev: (487.43, 652.20)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4030)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (41, 83, 293)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 797)
[M::mem_pestat] mean and std.dev: (118.84, 151.45)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1049)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000284 sequences (100000074 bp)...
[M::mem_process_seqs] Processed 2000294 reads in 676.997 CPU sec, 67.860 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1126, 706040, 190, 1027)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 69, 196)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 518)
[M::mem_pestat] mean and std.dev: (82.19, 85.84)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 679)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1091)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2979)
[M::mem_pestat] mean and std.dev: (537.24, 663.21)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3923)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (46, 289, 948)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2752)
[M::mem_pestat] mean and std.dev: (496.82, 653.63)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3654)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 85, 301)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 829)
[M::mem_pestat] mean and std.dev: (115.81, 144.44)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1093)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000280 sequences (100000045 bp)...
[M::mem_process_seqs] Processed 2000284 reads in 676.004 CPU sec, 67.733 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1160, 705404, 190, 974)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 68, 202)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 538)
[M::mem_pestat] mean and std.dev: (84.02, 91.40)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 706)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 231, 1090)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2976)
[M::mem_pestat] mean and std.dev: (536.88, 661.55)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3919)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (20, 119, 999)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2957)
[M::mem_pestat] mean and std.dev: (446.82, 650.18)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3936)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (36, 83, 247)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 669)
[M::mem_pestat] mean and std.dev: (102.79, 117.32)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 880)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000278 sequences (100000033 bp)...
[M::mem_process_seqs] Processed 2000280 reads in 672.914 CPU sec, 67.370 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1147, 706101, 209, 1013)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 76, 235)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 635)
[M::mem_pestat] mean and std.dev: (95.46, 112.24)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 835)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1087)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2967)
[M::mem_pestat] mean and std.dev: (536.20, 661.14)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3907)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (22, 188, 767)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2257)
[M::mem_pestat] mean and std.dev: (339.09, 454.33)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3002)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (36, 72, 206)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 546)
[M::mem_pestat] mean and std.dev: (87.74, 95.26)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 716)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000298 sequences (100000078 bp)...
[M::mem_process_seqs] Processed 2000278 reads in 688.977 CPU sec, 69.205 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1150, 706166, 188, 987)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 70, 180)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 472)
[M::mem_pestat] mean and std.dev: (81.93, 81.19)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 618)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 229, 1085)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2961)
[M::mem_pestat] mean and std.dev: (534.86, 659.72)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3899)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (22, 119, 951)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2809)
[M::mem_pestat] mean and std.dev: (393.27, 637.97)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3738)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 79, 217)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 577)
[M::mem_pestat] mean and std.dev: (95.47, 103.36)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 757)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000284 sequences (100000070 bp)...
[M::mem_process_seqs] Processed 2000298 reads in 703.781 CPU sec, 70.657 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1131, 705622, 171, 1028)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 73, 240)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 652)
[M::mem_pestat] mean and std.dev: (95.57, 115.99)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 858)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 228, 1071)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2921)
[M::mem_pestat] mean and std.dev: (528.96, 652.40)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3846)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (25, 138, 1012)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2986)
[M::mem_pestat] mean and std.dev: (420.39, 583.90)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3973)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 84, 302)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 828)
[M::mem_pestat] mean and std.dev: (113.67, 141.07)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1091)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000290 sequences (100000041 bp)...
[M::mem_process_seqs] Processed 2000284 reads in 695.134 CPU sec, 69.781 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1160, 705740, 218, 1010)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 72, 209)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 557)
[M::mem_pestat] mean and std.dev: (87.76, 94.93)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 731)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 226, 1055)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2873)
[M::mem_pestat] mean and std.dev: (521.29, 642.03)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3782)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (24, 138, 935)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2757)
[M::mem_pestat] mean and std.dev: (397.11, 582.30)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3668)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (35, 77, 205)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 545)
[M::mem_pestat] mean and std.dev: (83.69, 84.10)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 715)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000288 sequences (100000076 bp)...
[M::mem_process_seqs] Processed 2000290 reads in 684.862 CPU sec, 68.921 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1120, 704098, 198, 1062)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 72, 220)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 592)
[M::mem_pestat] mean and std.dev: (89.04, 99.37)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 778)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 227, 1067)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2909)
[M::mem_pestat] mean and std.dev: (527.20, 650.62)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3830)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (24, 154, 1000)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2952)
[M::mem_pestat] mean and std.dev: (443.58, 643.34)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3928)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (35, 78, 226)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 608)
[M::mem_pestat] mean and std.dev: (89.84, 102.25)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 799)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000304 sequences (100000043 bp)...
[M::mem_process_seqs] Processed 2000288 reads in 704.614 CPU sec, 70.786 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1160, 705185, 196, 984)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 69, 193)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 509)
[M::mem_pestat] mean and std.dev: (84.91, 87.04)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 667)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (145, 224, 1055)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2875)
[M::mem_pestat] mean and std.dev: (522.05, 644.55)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3785)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (20, 235, 1078)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3194)
[M::mem_pestat] mean and std.dev: (535.45, 666.16)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4252)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (35, 75, 311)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 863)
[M::mem_pestat] mean and std.dev: (116.34, 158.92)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1139)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000314 sequences (100000022 bp)...
[M::mem_process_seqs] Processed 2000304 reads in 726.556 CPU sec, 73.319 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1105, 706235, 187, 987)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 71, 195)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 515)
[M::mem_pestat] mean and std.dev: (79.36, 78.48)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 675)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 226, 1064)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2900)
[M::mem_pestat] mean and std.dev: (525.27, 647.81)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3818)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (22, 208, 854)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2518)
[M::mem_pestat] mean and std.dev: (429.40, 551.07)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3350)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 87, 272)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 740)
[M::mem_pestat] mean and std.dev: (108.36, 129.95)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 974)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000274 sequences (100000087 bp)...
[M::mem_process_seqs] Processed 2000314 reads in 748.234 CPU sec, 75.286 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1112, 706081, 170, 891)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 79, 242)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 654)
[M::mem_pestat] mean and std.dev: (96.24, 107.81)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 860)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (150, 237, 1133)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3099)
[M::mem_pestat] mean and std.dev: (557.98, 688.77)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4082)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (22, 166, 1237)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3667)
[M::mem_pestat] mean and std.dev: (581.48, 766.54)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4882)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (40, 93, 338)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 934)
[M::mem_pestat] mean and std.dev: (135.11, 171.16)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1232)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000294 sequences (100000099 bp)...
[M::mem_process_seqs] Processed 2000274 reads in 752.549 CPU sec, 75.763 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1128, 705348, 173, 872)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 69, 188)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 492)
[M::mem_pestat] mean and std.dev: (82.64, 84.93)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 644)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (149, 235, 1115)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3047)
[M::mem_pestat] mean and std.dev: (549.68, 676.86)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4013)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (19, 138, 1035)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3067)
[M::mem_pestat] mean and std.dev: (519.58, 747.76)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4083)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 86, 271)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 737)
[M::mem_pestat] mean and std.dev: (109.47, 123.84)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 970)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000288 sequences (100000036 bp)...
[M::mem_process_seqs] Processed 2000294 reads in 746.862 CPU sec, 75.273 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1131, 707434, 176, 989)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (33, 67, 202)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 540)
[M::mem_pestat] mean and std.dev: (84.71, 94.29)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 709)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (148, 232, 1098)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2998)
[M::mem_pestat] mean and std.dev: (541.09, 667.12)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3948)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (20, 170, 1024)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3032)
[M::mem_pestat] mean and std.dev: (481.48, 696.57)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4036)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 84, 249)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 671)
[M::mem_pestat] mean and std.dev: (107.08, 124.88)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 882)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000294 sequences (100000036 bp)...
[M::mem_process_seqs] Processed 2000288 reads in 759.433 CPU sec, 76.333 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1153, 706398, 198, 973)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 71, 188)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 492)
[M::mem_pestat] mean and std.dev: (85.10, 86.16)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 644)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1076)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2934)
[M::mem_pestat] mean and std.dev: (531.97, 655.10)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3863)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (16, 144, 922)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2734)
[M::mem_pestat] mean and std.dev: (462.18, 628.35)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3640)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 82, 321)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 887)
[M::mem_pestat] mean and std.dev: (118.54, 160.10)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1170)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000278 sequences (100000078 bp)...
[M::mem_process_seqs] Processed 2000294 reads in 740.582 CPU sec, 74.306 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1145, 705890, 169, 963)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 69, 183)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 481)
[M::mem_pestat] mean and std.dev: (78.35, 77.43)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 630)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1072)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2922)
[M::mem_pestat] mean and std.dev: (530.10, 651.45)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3847)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (37, 208, 1343)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3955)
[M::mem_pestat] mean and std.dev: (633.42, 851.67)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 5261)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (36, 80, 245)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 663)
[M::mem_pestat] mean and std.dev: (102.35, 121.29)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 872)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000296 sequences (100000009 bp)...
[M::mem_process_seqs] Processed 2000278 reads in 733.495 CPU sec, 73.664 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1146, 706349, 161, 1044)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 72, 230)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 620)
[M::mem_pestat] mean and std.dev: (94.95, 110.18)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 815)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1072)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2922)
[M::mem_pestat] mean and std.dev: (529.62, 651.03)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3847)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 281, 1372)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 4044)
[M::mem_pestat] mean and std.dev: (741.15, 987.31)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 5380)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (40, 84, 256)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 688)
[M::mem_pestat] mean and std.dev: (101.42, 116.73)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 904)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000288 sequences (100000050 bp)...
[M::mem_process_seqs] Processed 2000296 reads in 734.066 CPU sec, 73.896 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1107, 705331, 190, 967)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 71, 198)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 524)
[M::mem_pestat] mean and std.dev: (84.61, 85.56)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 687)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1081)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2949)
[M::mem_pestat] mean and std.dev: (533.81, 657.55)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3883)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (22, 180, 1147)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3397)
[M::mem_pestat] mean and std.dev: (446.77, 607.01)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4522)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (40, 85, 264)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 712)
[M::mem_pestat] mean and std.dev: (113.60, 134.74)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 936)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000286 sequences (100000092 bp)...
[M::mem_process_seqs] Processed 2000288 reads in 704.547 CPU sec, 70.857 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1216, 706711, 171, 1022)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 70, 196)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 516)
[M::mem_pestat] mean and std.dev: (82.55, 84.40)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 676)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 228, 1063)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2897)
[M::mem_pestat] mean and std.dev: (524.76, 645.85)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3814)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (44, 206, 968)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2816)
[M::mem_pestat] mean and std.dev: (520.80, 676.11)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3740)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 84, 270)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 732)
[M::mem_pestat] mean and std.dev: (106.31, 128.21)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 963)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000294 sequences (100000015 bp)...
[M::mem_process_seqs] Processed 2000286 reads in 689.794 CPU sec, 69.261 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1189, 705933, 189, 1058)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (33, 69, 199)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 531)
[M::mem_pestat] mean and std.dev: (81.52, 86.15)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 697)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 227, 1062)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2894)
[M::mem_pestat] mean and std.dev: (524.79, 646.60)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3810)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (22, 117, 686)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2014)
[M::mem_pestat] mean and std.dev: (309.36, 452.59)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 2678)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (35, 76, 274)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 752)
[M::mem_pestat] mean and std.dev: (105.67, 135.65)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 991)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000302 sequences (100000075 bp)...
[M::mem_process_seqs] Processed 2000294 reads in 687.702 CPU sec, 69.101 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1139, 705406, 186, 1047)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 67, 193)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 507)
[M::mem_pestat] mean and std.dev: (77.05, 76.51)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 664)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 226, 1052)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2864)
[M::mem_pestat] mean and std.dev: (520.20, 641.01)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3770)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (20, 119, 905)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2675)
[M::mem_pestat] mean and std.dev: (416.17, 624.69)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3560)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 81, 225)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 601)
[M::mem_pestat] mean and std.dev: (95.12, 107.22)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 789)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000294 sequences (100000012 bp)...
[M::mem_process_seqs] Processed 2000302 reads in 699.261 CPU sec, 70.388 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1093, 705757, 189, 1029)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 74, 214)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 572)
[M::mem_pestat] mean and std.dev: (88.39, 97.32)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 751)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (145, 225, 1052)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2866)
[M::mem_pestat] mean and std.dev: (520.26, 641.66)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3773)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (16, 100, 932)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2764)
[M::mem_pestat] mean and std.dev: (396.57, 604.27)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3680)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (33, 76, 186)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 492)
[M::mem_pestat] mean and std.dev: (80.67, 78.40)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 645)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000296 sequences (100000062 bp)...
[M::mem_process_seqs] Processed 2000294 reads in 680.773 CPU sec, 68.461 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1135, 705840, 191, 1044)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 66, 170)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 438)
[M::mem_pestat] mean and std.dev: (75.52, 68.14)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 572)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (145, 223, 1038)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2824)
[M::mem_pestat] mean and std.dev: (514.01, 634.05)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3717)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (28, 129, 1101)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3247)
[M::mem_pestat] mean and std.dev: (561.34, 818.94)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4320)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (36, 79, 235)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 633)
[M::mem_pestat] mean and std.dev: (99.21, 114.40)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 832)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000308 sequences (100000083 bp)...
[M::mem_process_seqs] Processed 2000296 reads in 679.216 CPU sec, 68.252 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1154, 705987, 183, 938)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 70, 207)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 551)
[M::mem_pestat] mean and std.dev: (86.72, 92.81)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 723)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 227, 1064)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2900)
[M::mem_pestat] mean and std.dev: (525.93, 648.74)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3818)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (31, 207, 1020)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2998)
[M::mem_pestat] mean and std.dev: (464.63, 658.12)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3987)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 88, 252)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 680)
[M::mem_pestat] mean and std.dev: (100.87, 111.00)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 894)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000262 sequences (100000041 bp)...
[M::mem_process_seqs] Processed 2000308 reads in 693.219 CPU sec, 69.578 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1081, 706244, 171, 820)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (39, 80, 302)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 828)
[M::mem_pestat] mean and std.dev: (118.43, 152.74)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1091)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (149, 236, 1124)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3074)
[M::mem_pestat] mean and std.dev: (554.39, 684.73)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4049)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 313, 1230)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3620)
[M::mem_pestat] mean and std.dev: (654.47, 856.52)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4815)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 87, 271)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 735)
[M::mem_pestat] mean and std.dev: (104.26, 123.90)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 967)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000270 sequences (100000082 bp)...
[M::mem_process_seqs] Processed 2000262 reads in 711.813 CPU sec, 71.565 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1113, 706388, 156, 843)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (39, 82, 238)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 636)
[M::mem_pestat] mean and std.dev: (95.69, 100.80)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 835)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::process] read 2000282 sequences (100000042 bp)...
[M::mem_pestat] (25, 50, 75) percentile: (149, 234, 1104)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3014)
[M::mem_pestat] mean and std.dev: (544.91, 671.06)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3969)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (29, 199, 1180)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3482)
[M::mem_pestat] mean and std.dev: (493.66, 707.45)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4633)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 89, 255)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 689)
[M::mem_pestat] mean and std.dev: (107.28, 121.48)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 906)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 2000270 reads in 699.860 CPU sec, 70.170 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1086, 706230, 190, 847)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 69, 219)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 585)
[M::mem_pestat] mean and std.dev: (91.12, 104.82)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 768)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (148, 233, 1100)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3004)
[M::mem_pestat] mean and std.dev: (542.22, 668.05)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3956)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (32, 262, 1084)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3188)
[M::mem_pestat] mean and std.dev: (575.52, 772.55)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4240)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (43, 91, 259)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 691)
[M::mem_pestat] mean and std.dev: (111.72, 125.81)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 907)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000302 sequences (100000073 bp)...
[M::mem_process_seqs] Processed 2000282 reads in 692.819 CPU sec, 69.578 real sec
[M::process] read 2000278 sequences (100000050 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1131, 706371, 179, 917)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 67, 190)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 500)
[M::mem_pestat] mean and std.dev: (82.43, 84.80)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 655)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1076)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2934)
[M::mem_pestat] mean and std.dev: (531.60, 653.49)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3863)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (28, 221, 928)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2728)
[M::mem_pestat] mean and std.dev: (406.24, 508.37)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3628)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (35, 79, 232)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 626)
[M::mem_pestat] mean and std.dev: (97.55, 110.48)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 823)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 2000302 reads in 691.797 CPU sec, 69.239 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1134, 707133, 192, 910)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 67, 174)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 450)
[M::mem_pestat] mean and std.dev: (77.14, 72.25)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 588)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 231, 1085)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2961)
[M::mem_pestat] mean and std.dev: (536.39, 660.62)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3899)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (46, 193, 995)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2893)
[M::mem_pestat] mean and std.dev: (495.73, 664.42)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3842)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 86, 248)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 666)
[M::mem_pestat] mean and std.dev: (100.51, 109.19)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 875)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000278 sequences (100000047 bp)...
[M::mem_process_seqs] Processed 2000278 reads in 684.415 CPU sec, 68.467 real sec
[M::process] read 2000272 sequences (100000089 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1089, 705496, 185, 921)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (37, 73, 207)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 547)
[M::mem_pestat] mean and std.dev: (87.99, 94.63)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 717)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1086)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2964)
[M::mem_pestat] mean and std.dev: (536.49, 661.61)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3903)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (33, 226, 1045)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3069)
[M::mem_pestat] mean and std.dev: (545.08, 712.08)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4081)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (41, 90, 298)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 812)
[M::mem_pestat] mean and std.dev: (121.96, 151.82)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1069)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 2000278 reads in 685.841 CPU sec, 68.533 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1082, 706647, 189, 896)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (37, 72, 200)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 526)
[M::mem_pestat] mean and std.dev: (84.03, 85.44)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 689)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 229, 1084)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2958)
[M::mem_pestat] mean and std.dev: (534.01, 659.19)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3895)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (18, 124, 923)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2733)
[M::mem_pestat] mean and std.dev: (444.53, 642.38)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3638)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 79, 259)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 701)
[M::mem_pestat] mean and std.dev: (101.41, 121.91)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 922)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000294 sequences (100000082 bp)...
[M::mem_process_seqs] Processed 2000272 reads in 682.708 CPU sec, 68.282 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1157, 706493, 183, 946)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 66, 176)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 460)
[M::mem_pestat] mean and std.dev: (77.81, 76.68)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 602)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 228, 1082)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2952)
[M::mem_pestat] mean and std.dev: (532.60, 657.92)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3887)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (25, 249, 1151)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3403)
[M::mem_pestat] mean and std.dev: (554.77, 746.90)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4529)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (43, 92, 365)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1009)
[M::mem_pestat] mean and std.dev: (130.19, 180.36)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1331)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000296 sequences (100000038 bp)...
[M::mem_process_seqs] Processed 2000294 reads in 687.201 CPU sec, 68.704 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1125, 707478, 199, 863)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 69, 175)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 457)
[M::mem_pestat] mean and std.dev: (80.79, 77.99)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 598)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 226, 1051)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2861)
[M::mem_pestat] mean and std.dev: (520.38, 640.13)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3766)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (18, 119, 1204)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3576)
[M::mem_pestat] mean and std.dev: (590.75, 872.57)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4762)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 91, 377)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1053)
[M::mem_pestat] mean and std.dev: (142.44, 198.15)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1391)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000292 sequences (100000005 bp)...
[M::mem_process_seqs] Processed 2000296 reads in 673.621 CPU sec, 67.769 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1103, 707871, 160, 878)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (37, 72, 209)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 553)
[M::mem_pestat] mean and std.dev: (83.62, 88.14)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 725)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 226, 1063)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2897)
[M::mem_pestat] mean and std.dev: (524.50, 647.83)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3814)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (28, 304, 1003)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2953)
[M::mem_pestat] mean and std.dev: (528.61, 708.10)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3928)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 81, 284)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 778)
[M::mem_pestat] mean and std.dev: (111.44, 138.56)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1025)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000294 sequences (100000005 bp)...
[M::mem_process_seqs] Processed 2000292 reads in 677.984 CPU sec, 67.865 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1144, 706952, 169, 888)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 70, 197)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 519)
[M::mem_pestat] mean and std.dev: (82.72, 83.06)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 680)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (145, 224, 1044)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2842)
[M::mem_pestat] mean and std.dev: (515.94, 637.20)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3741)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (18, 181, 1015)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3009)
[M::mem_pestat] mean and std.dev: (521.20, 735.82)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4006)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (36, 82, 245)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 663)
[M::mem_pestat] mean and std.dev: (101.04, 119.58)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 872)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000276 sequences (100000093 bp)...
[M::mem_process_seqs] Processed 2000294 reads in 672.668 CPU sec, 67.276 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1071, 707148, 184, 880)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 71, 209)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 559)
[M::mem_pestat] mean and std.dev: (91.49, 101.12)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 734)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 225, 1053)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2867)
[M::mem_pestat] mean and std.dev: (520.65, 641.62)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3774)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (31, 190, 1136)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3346)
[M::mem_pestat] mean and std.dev: (576.01, 802.77)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4451)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 86, 321)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 885)
[M::mem_pestat] mean and std.dev: (124.64, 170.71)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1167)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000262 sequences (100000053 bp)...
[M::mem_process_seqs] Processed 2000276 reads in 669.031 CPU sec, 67.040 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1085, 706221, 190, 811)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 76, 242)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 654)
[M::mem_pestat] mean and std.dev: (99.99, 116.70)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 860)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (149, 235, 1117)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3053)
[M::mem_pestat] mean and std.dev: (551.03, 679.54)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4021)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (25, 202, 1137)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3361)
[M::mem_pestat] mean and std.dev: (543.82, 741.27)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4473)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (44, 96, 448)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1256)
[M::mem_pestat] mean and std.dev: (169.72, 235.13)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1660)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000288 sequences (100000062 bp)...
[M::mem_process_seqs] Processed 2000262 reads in 695.257 CPU sec, 69.821 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1091, 705733, 175, 846)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 73, 227)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 611)
[M::mem_pestat] mean and std.dev: (92.79, 107.93)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 803)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (148, 234, 1113)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3043)
[M::mem_pestat] mean and std.dev: (548.68, 677.11)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4008)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (30, 132, 923)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2709)
[M::mem_pestat] mean and std.dev: (419.15, 597.26)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3602)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (42, 94, 329)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 903)
[M::mem_pestat] mean and std.dev: (134.65, 172.84)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1190)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000280 sequences (100000054 bp)...
[M::mem_process_seqs] Processed 2000288 reads in 690.778 CPU sec, 69.225 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1195, 706664, 196, 854)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (37, 75, 204)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 538)
[M::mem_pestat] mean and std.dev: (88.72, 93.86)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 705)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (148, 232, 1096)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2992)
[M::mem_pestat] mean and std.dev: (539.87, 665.33)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3940)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (31, 120, 804)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2350)
[M::mem_pestat] mean and std.dev: (412.79, 591.51)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3123)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 80, 258)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 696)
[M::mem_pestat] mean and std.dev: (102.71, 122.48)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 915)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000290 sequences (100000090 bp)...
[M::mem_process_seqs] Processed 2000280 reads in 686.197 CPU sec, 69.043 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1095, 705958, 187, 906)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 73, 194)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 514)
[M::mem_pestat] mean and std.dev: (79.39, 78.22)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 674)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 229, 1067)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2907)
[M::mem_pestat] mean and std.dev: (527.44, 649.99)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3827)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (25, 303, 1157)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3421)
[M::mem_pestat] mean and std.dev: (560.46, 680.50)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4553)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 79, 247)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 663)
[M::mem_pestat] mean and std.dev: (96.43, 112.62)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 871)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000288 sequences (100000055 bp)...
[M::mem_process_seqs] Processed 2000290 reads in 672.927 CPU sec, 67.579 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1130, 706711, 200, 857)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (36, 78, 234)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 630)
[M::mem_pestat] mean and std.dev: (88.35, 96.54)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 828)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 230, 1086)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2964)
[M::mem_pestat] mean and std.dev: (534.88, 659.93)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3903)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (18, 236, 1243)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3693)
[M::mem_pestat] mean and std.dev: (544.52, 803.76)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4918)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 79, 275)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 751)
[M::mem_pestat] mean and std.dev: (110.70, 143.37)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 989)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000278 sequences (100000064 bp)...
[M::mem_process_seqs] Processed 2000288 reads in 680.599 CPU sec, 68.199 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1122, 706618, 176, 906)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (39, 72, 196)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 510)
[M::mem_pestat] mean and std.dev: (81.30, 78.33)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 667)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 229, 1076)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2934)
[M::mem_pestat] mean and std.dev: (530.61, 653.45)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3863)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (26, 176, 953)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2807)
[M::mem_pestat] mean and std.dev: (487.75, 673.19)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3734)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 84, 229)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 611)
[M::mem_pestat] mean and std.dev: (94.53, 96.11)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 802)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000286 sequences (100000059 bp)...
[M::mem_process_seqs] Processed 2000278 reads in 675.478 CPU sec, 67.442 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1145, 706211, 175, 889)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 70, 198)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 526)
[M::mem_pestat] mean and std.dev: (83.96, 83.78)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 690)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (147, 228, 1070)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2916)
[M::mem_pestat] mean and std.dev: (528.23, 650.54)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3839)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (16, 95, 1057)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3139)
[M::mem_pestat] mean and std.dev: (461.09, 732.56)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4180)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 80, 305)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 841)
[M::mem_pestat] mean and std.dev: (118.35, 160.60)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1109)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000284 sequences (100000071 bp)...
[M::mem_process_seqs] Processed 2000286 reads in 677.724 CPU sec, 67.863 real sec
[M::process] read 2000286 sequences (100000005 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1087, 705790, 182, 863)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (38, 76, 226)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 602)
[M::mem_pestat] mean and std.dev: (90.99, 99.62)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 790)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 228, 1068)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2912)
[M::mem_pestat] mean and std.dev: (527.83, 650.59)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3834)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (24, 316, 1461)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 4335)
[M::mem_pestat] mean and std.dev: (853.20, 1154.94)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 5772)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (38, 81, 280)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 764)
[M::mem_pestat] mean and std.dev: (114.67, 146.79)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1006)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 2000284 reads in 678.809 CPU sec, 68.007 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1077, 706864, 161, 961)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (34, 73, 208)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 556)
[M::mem_pestat] mean and std.dev: (86.76, 90.42)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 730)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 226, 1060)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2888)
[M::mem_pestat] mean and std.dev: (524.18, 646.76)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3802)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (24, 232, 1201)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3555)
[M::mem_pestat] mean and std.dev: (606.57, 802.06)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4732)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (36, 82, 249)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 675)
[M::mem_pestat] mean and std.dev: (96.16, 107.70)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 888)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000302 sequences (100000091 bp)...
[M::mem_process_seqs] Processed 2000286 reads in 670.494 CPU sec, 67.328 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1141, 706306, 180, 874)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (38, 79, 255)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 689)
[M::mem_pestat] mean and std.dev: (103.76, 122.92)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 906)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (146, 225, 1059)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2885)
[M::mem_pestat] mean and std.dev: (522.17, 645.50)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3798)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (17, 145, 1204)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3578)
[M::mem_pestat] mean and std.dev: (558.20, 834.92)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4765)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (39, 85, 288)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 786)
[M::mem_pestat] mean and std.dev: (111.89, 145.85)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1035)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 2000296 sequences (100000096 bp)...
[M::mem_process_seqs] Processed 2000302 reads in 671.457 CPU sec, 67.429 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1125, 707177, 168, 930)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (35, 74, 198)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 524)
[M::mem_pestat] mean and std.dev: (83.34, 82.34)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 687)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (145, 224, 1050)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2860)
[M::mem_pestat] mean and std.dev: (519.47, 642.01)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3765)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (17, 163, 1084)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3218)
[M::mem_pestat] mean and std.dev: (541.78, 729.47)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4285)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (36, 81, 206)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 546)
[M::mem_pestat] mean and std.dev: (88.43, 89.28)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 716)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::process] read 1496866 sequences (74832153 bp)...
[M::mem_process_seqs] Processed 2000296 reads in 676.911 CPU sec, 67.989 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (795, 529531, 127, 647)
[M::mem_pestat] analyzing insert size distribution for orientation FF...
[M::mem_pestat] (25, 50, 75) percentile: (37, 75, 197)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 517)
[M::mem_pestat] mean and std.dev: (83.22, 86.30)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 677)
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (145, 222, 1040)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 2830)
[M::mem_pestat] mean and std.dev: (513.73, 634.32)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 3725)
[M::mem_pestat] analyzing insert size distribution for orientation RF...
[M::mem_pestat] (25, 50, 75) percentile: (20, 387, 1057)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 3131)
[M::mem_pestat] mean and std.dev: (594.73, 716.63)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 4168)
[M::mem_pestat] analyzing insert size distribution for orientation RR...
[M::mem_pestat] (25, 50, 75) percentile: (37, 86, 285)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 781)
[M::mem_pestat] mean and std.dev: (116.77, 144.91)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1029)
[M::mem_pestat] skip orientation FF
[M::mem_pestat] skip orientation RF
[M::mem_pestat] skip orientation RR
[M::mem_process_seqs] Processed 1496866 reads in 481.664 CPU sec, 48.280 real sec
[main] Version: 0.7.15-r1140
[main] CMD: bwa mem -t 10 /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//retained-pairs_1.fq /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//retained-pairs_2.fq
[main] Real time: 3496.795 sec; CPU: 34486.047 sec
Executing: samtools sort -@ 10 /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//retained-pairs.remapped.bam -o /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//retained-pairs.remapped.cs.bam
[bam_sort_core] merging from 20 files and 10 in-memory blocks...
Executing: /illumina/software/Survirus/SurVirus-master/extract_clips /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/
Executing: bwa aln -t 10 /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.fa -f /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.sai
[bwa_aln] 17bp reads: max_diff = 2
[bwa_aln] 38bp reads: max_diff = 3
[bwa_aln] 64bp reads: max_diff = 4
[bwa_aln] 93bp reads: max_diff = 5
[bwa_aln] 124bp reads: max_diff = 6
[bwa_aln] 157bp reads: max_diff = 7
[bwa_aln] 190bp reads: max_diff = 8
[bwa_aln] 225bp reads: max_diff = 9
[main] Version: 0.7.15-r1140
[main] CMD: bwa aln -t 10 -f /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.sai /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.fa
[main] Real time: 12.409 sec; CPU: 2.155 sec
Executing: bwa samse /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.sai /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.fa | samtools view -b -F 2304 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.full.bam
[main] Version: 0.7.15-r1140
[main] CMD: bwa samse /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.sai /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.fa
[main] Real time: 0.031 sec; CPU: 0.003 sec
Executing: samtools view -b -F 4 /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.full.bam > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.aln.bam
Executing: samtools fasta -f 4 /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.full.bam > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.unmapped.fa
[M::bam2fq_mainloop] discarded 0 singletons
[M::bam2fq_mainloop] processed 0 reads
Executing: bwa mem -t 10 /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.unmapped.fa | samtools view -b -F 2308 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.mem.bam
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[main] Version: 0.7.15-r1140
[main] CMD: bwa mem -t 10 /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.unmapped.fa
[main] Real time: 12.001 sec; CPU: 4.321 sec
Executing: samtools cat /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.aln.bam /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.mem.bam -o /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-clips.bam
Executing: bwa aln -t 10 /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.fa -f /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.sai
[bwa_aln] 17bp reads: max_diff = 2
[bwa_aln] 38bp reads: max_diff = 3
[bwa_aln] 64bp reads: max_diff = 4
[bwa_aln] 93bp reads: max_diff = 5
[bwa_aln] 124bp reads: max_diff = 6
[bwa_aln] 157bp reads: max_diff = 7
[bwa_aln] 190bp reads: max_diff = 8
[bwa_aln] 225bp reads: max_diff = 9
[bwa_aln_core] calculate SA coordinate... 56.28 sec
[bwa_aln_core] write to the disk... 0.02 sec
[bwa_aln_core] 262144 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 47.94 sec
[bwa_aln_core] write to the disk... 0.02 sec
[bwa_aln_core] 524288 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 56.48 sec
[bwa_aln_core] write to the disk... 0.01 sec
[bwa_aln_core] 786432 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 48.88 sec
[bwa_aln_core] write to the disk... 0.03 sec
[bwa_aln_core] 1048576 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 51.53 sec
[bwa_aln_core] write to the disk... 0.03 sec
[bwa_aln_core] 1310720 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 50.40 sec
[bwa_aln_core] write to the disk... 0.02 sec
[bwa_aln_core] 1572864 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 45.68 sec
[bwa_aln_core] write to the disk... 0.03 sec
[bwa_aln_core] 1835008 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 49.25 sec
[bwa_aln_core] write to the disk... 0.03 sec
[bwa_aln_core] 2097152 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 48.59 sec
[bwa_aln_core] write to the disk... 0.01 sec
[bwa_aln_core] 2359296 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 45.01 sec
[bwa_aln_core] write to the disk... 0.02 sec
[bwa_aln_core] 2621440 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 48.72 sec
[bwa_aln_core] write to the disk... 0.01 sec
[bwa_aln_core] 2883584 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 51.61 sec
[bwa_aln_core] write to the disk... 0.03 sec
[bwa_aln_core] 3145728 sequences have been processed.
[bwa_aln_core] calculate SA coordinate... 10.90 sec
[bwa_aln_core] write to the disk... 0.00 sec
[bwa_aln_core] 3206365 sequences have been processed.
[main] Version: 0.7.15-r1140
[main] CMD: bwa aln -t 10 -f /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.sai /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.fa
[main] Real time: 75.153 sec; CPU: 614.150 sec
Executing: bwa samse /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.sai /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.fa | samtools view -b -F 2304 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.full.bam
[bwa_aln_core] convert to sequence coordinate... 0.05 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.16 sec
[bwa_aln_core] 262144 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.04 sec
[bwa_aln_core] refine gapped alignments... 0.05 sec
[bwa_aln_core] print alignments... 0.16 sec
[bwa_aln_core] 524288 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.04 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.16 sec
[bwa_aln_core] 786432 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.05 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.16 sec
[bwa_aln_core] 1048576 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.06 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.18 sec
[bwa_aln_core] 1310720 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.06 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.16 sec
[bwa_aln_core] 1572864 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.06 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.16 sec
[bwa_aln_core] 1835008 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.04 sec
[bwa_aln_core] refine gapped alignments... 0.03 sec
[bwa_aln_core] print alignments... 0.14 sec
[bwa_aln_core] 2097152 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.08 sec
[bwa_aln_core] refine gapped alignments... 0.06 sec
[bwa_aln_core] print alignments... 0.15 sec
[bwa_aln_core] 2359296 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.04 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.17 sec
[bwa_aln_core] 2621440 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.04 sec
[bwa_aln_core] refine gapped alignments... 0.04 sec
[bwa_aln_core] print alignments... 0.17 sec
[bwa_aln_core] 2883584 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.05 sec
[bwa_aln_core] refine gapped alignments... 0.03 sec
[bwa_aln_core] print alignments... 0.15 sec
[bwa_aln_core] 3145728 sequences have been processed.
[bwa_aln_core] convert to sequence coordinate... 0.01 sec
[bwa_aln_core] refine gapped alignments... 0.01 sec
[bwa_aln_core] print alignments... 0.03 sec
[bwa_aln_core] 3206365 sequences have been processed.
[main] Version: 0.7.15-r1140
[main] CMD: bwa samse /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.sai /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.fa
[main] Real time: 15.165 sec; CPU: 5.299 sec
Executing: samtools view -b -F 4 /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.full.bam > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.aln.bam
Executing: samtools fasta -f 4 /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.full.bam > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.unmapped.fa
[M::bam2fq_mainloop] discarded 0 singletons
[M::bam2fq_mainloop] processed 3127162 reads
Executing: bwa mem -t 10 /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.unmapped.fa | samtools view -b -F 2308 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.mem.bam
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 3127162 sequences (71794164 bp)...
[M::mem_process_seqs] Processed 3127162 reads in 71.249 CPU sec, 7.762 real sec
[main] Version: 0.7.15-r1140
[main] CMD: bwa mem -t 10 /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.unmapped.fa
[main] Real time: 10.794 sec; CPU: 73.812 sec
Executing: samtools cat /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.aln.bam /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.mem.bam -o /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-clips.bam
Executing: /illumina/software/Survirus/SurVirus-master/reads_categorizer /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/
Executing: bwa mem -t 10 -h 762 /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-side.fq | samtools view -b -F 2308 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-side.bam
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[main] Version: 0.7.15-r1140
[main] CMD: bwa mem -t 10 -h 762 /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//virus-side.fq
[main] Real time: 3.990 sec; CPU: 3.985 sec
Executing: bwa mem -t 10 -h 100 /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-side.fq | samtools view -b -F 2308 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-side.bam
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 78720 sequences (3935282 bp)...
[M::mem_process_seqs] Processed 78720 reads in 8.115 CPU sec, 0.818 real sec
[main] Version: 0.7.15-r1140
[main] CMD: bwa mem -t 10 -h 100 /illumina/genomes/Virus_Human/BWAindex/hg38_viruses_757.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0//host-side.fq
[main] Real time: 5.418 sec; CPU: 11.862 sec
Executing: /illumina/software/Survirus/SurVirus-master/merge_retained_reads /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/
Executing: /illumina/software/Survirus/SurVirus-master/build_region-reads_associations /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/
Executing: /illumina/software/Survirus/SurVirus-master/remapper /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/ > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.txt 2> /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/log.txt
sh: line 1:  6222 Segmentation fault      /illumina/software/Survirus/SurVirus-master/remapper /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/ > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.txt 2> /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/log.txt
Executing: /illumina/software/Survirus/SurVirus-master/bp_region_consensus_builder /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/genomes/Virus/BWAindex/viruses_757.fasta /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/bam_0/
Executing: /illumina/software/sdust/sdust-0.1/sdust /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/host_bp_seqs.fa > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/host_bp_seqs.masked.bed
Executing: /illumina/software/sdust/sdust-0.1/sdust /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/virus_bp_seqs.fa > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/virus_bp_seqs.masked.bed
Executing: /illumina/software/Survirus/SurVirus-master/filter /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.t1.txt
sh: line 1:  6235 Segmentation fault      /illumina/software/Survirus/SurVirus-master/filter /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.t1.txt
Executing: /illumina/software/Survirus/SurVirus-master/filter /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus --remapped > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.remapped.t1.txt
sh: line 1:  6237 Segmentation fault      /illumina/software/Survirus/SurVirus-master/filter /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus --remapped > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.remapped.t1.txt
Executing: /illumina/software/Survirus/SurVirus-master/filter /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus --print-rejected > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.discarded.txt
sh: line 1:  6239 Segmentation fault      /illumina/software/Survirus/SurVirus-master/filter /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus --print-rejected > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/results.discarded.txt
Finding alternative locations...
Executing: bwa mem -t 10 -h 1000 /illumina/genomes/Human_hg38/BWAindex/hg38.fa /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/host_bp_seqs.fa | samtools view -b -F 2308 > /illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/host_bp_seqs.bam
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[E::main_mem] fail to open file `/illumina/Projects/TEST_VIRIUS/Workdir/L526401A/Survirus/host_bp_seqs.fa'.
Traceback (most recent call last):
  File "/illumina/software/Survirus/SurVirus-master/surveyor.py", line 230, in <module>
    with pysam.AlignmentFile("%s/host_bp_seqs.bam" % cmd_args.workdir) as bp_seqs_bam, \
  File "pysam/libcalignmentfile.pyx", line 734, in pysam.libcalignmentfile.AlignmentFile.__cinit__
  File "pysam/libcalignmentfile.pyx", line 983, in pysam.libcalignmentfile.AlignmentFile._open
ValueError: file has no sequences defined (mode='r') - is it SAM/BAM format? Consider opening with check_sq=False