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/2019-11-16-NextSeq-run/juicer-L1108-Tetrahymena_starved_Hi-C -d /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2019-11-16-NextSeq-run/juicer-L1108-Tetrahymena_starved_Hi-C -p /oak/stanford/groups/akundaje/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.chrom.sizes -y /oak/stanford/groups/akundaje/marinovg/genomes/Ciliates/Tetrahymena_thermophila/bwa-indexes/Tetrahymena_thermophila_MluCl.txt -z /oak/stanford/groups/akundaje/marinovg/genomes/Ciliates/Tetrahymena_thermophila/bwa-indexes/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.fa                                                                                                                                                                                                                                               
Sequenced Read Pairs:  220,558,086
 Normal Paired: 176,253,231 (79.91%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 44,304,855 (20.09%)
 Ligation Motif Present: 50,893 (0.02%)
Alignable (Normal+Chimeric Paired): 176,253,231 (79.91%)
Unique Reads: 137,448,706 (62.32%)
PCR Duplicates: 38,676,176 (17.54%)
Optical Duplicates: 128,349 (0.06%)
Library Complexity Estimate: 339,869,055
Intra-fragment Reads: 1,623,184 (0.74% / 1.18%)
Below MAPQ Threshold: 22,706,610 (10.30% / 16.52%)
Hi-C Contacts: 113,118,912 (51.29% / 82.30%)
 Ligation Motif Present: 28,071  (0.01% / 0.02%)
 3' Bias (Long Range): 48% - 52%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 73,043,371  (33.12% / 53.14%)
Intra-chromosomal: 40,075,541  (18.17% / 29.16%)
Short Range (<20Kb): 26,370,367  (11.96% / 19.19%)
Long Range (>20Kb): 13,702,839  (6.21% / 9.97%)