Experiment description: Juicer version 1.5.6; BWA 0.7.17-r1188; 60 threads; java version "1.8.0_131"; scripts/juicer.sh -t 60 -D /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2020-02-01-NextSeq-run/juicer-L1332-SSB01-a_amanitin-0h-Hi-C-symbB.v1.0.genome.FINAL-final-post-review-merge_debris_50kb-all_reads -d /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2020-02-01-NextSeq-run/juicer-L1332-SSB01-a_amanitin-0h-Hi-C-symbB.v1.0.genome.FINAL-final-post-review-merge_debris_50kb-all_reads -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:  117,543,007
 Normal Paired: 80,238,193 (68.26%)
 Chimeric Paired: 2,357,776 (2.01%)
 Chimeric Ambiguous: 900,492 (0.77%)
 Unmapped: 34,046,546 (28.97%)
 Ligation Motif Present: 12,904,639 (10.98%)
Alignable (Normal+Chimeric Paired): 82,595,969 (70.27%)
Unique Reads: 66,393,814 (56.48%)
PCR Duplicates: 16,175,260 (13.76%)
Optical Duplicates: 26,895 (0.02%)
Library Complexity Estimate: 182,213,300
Intra-fragment Reads: 14,383,887 (12.24% / 21.66%)
Below MAPQ Threshold: 17,920,642 (15.25% / 26.99%)
Hi-C Contacts: 34,089,285 (29.00% / 51.34%)
 Ligation Motif Present: 4,499,402  (3.83% / 6.78%)
 3' Bias (Long Range): 67% - 33%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 16,755,284  (14.25% / 25.24%)
Intra-chromosomal: 17,334,001  (14.75% / 26.11%)
Short Range (<20Kb): 11,572,509  (9.85% / 17.43%)
Long Range (>20Kb): 5,761,367  (4.90% / 8.68%)