Experiment description: Juicer version 1.5.6; BWA 0.7.5a-r405; 60 threads; java version "1.8.0_40"; scripts/juicer.sh -t 60 -D /srv/scratch/marinovg/juicer-L1242-SSB01-a_amanitin-16h-Hi-C-rep2-symbB.v1.0.genome.FINAL-final-post-review-merge_debris_50kb -d /srv/scratch/marinovg/juicer-L1242-SSB01-a_amanitin-16h-Hi-C-rep2-symbB.v1.0.genome.FINAL-final-post-review-merge_debris_50kb -p /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2019-03-10-NextSeq-run/final-post-review-merge_debris_50kb/symbB.v1.0.genome.FINAL.merge_debris_50kb.chrom.sizes -y /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2019-03-10-NextSeq-run/final-post-review-merge_debris_50kb/symbB.v1.0.genome.FINAL.merge_debris_50kb_MboI.txt -z /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2019-03-10-NextSeq-run/final-post-review-merge_debris_50kb/bwa-indexes/symbB.v1.0.genome.FINAL.merge_debris_50kb.fasta                                                                                                                
Sequenced Read Pairs:  67,376,168
 Normal Paired: 41,980,419 (62.31%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 25,395,749 (37.69%)
 Ligation Motif Present: 5,808,169 (8.62%)
Alignable (Normal+Chimeric Paired): 41,980,419 (62.31%)
Unique Reads: 38,317,943 (56.87%)
PCR Duplicates: 3,637,968 (5.40%)
Optical Duplicates: 24,508 (0.04%)
Library Complexity Estimate: 227,736,960
Intra-fragment Reads: 1,294,567 (1.92% / 3.38%)
Below MAPQ Threshold: 16,006,033 (23.76% / 41.77%)
Hi-C Contacts: 21,017,343 (31.19% / 54.85%)
 Ligation Motif Present: 416,058  (0.62% / 1.09%)
 3' Bias (Long Range): 67% - 33%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 13,438,470  (19.95% / 35.07%)
Intra-chromosomal: 7,578,873  (11.25% / 19.78%)
Short Range (<20Kb): 2,403,688  (3.57% / 6.27%)
Long Range (>20Kb): 5,175,131  (7.68% / 13.51%)