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: 14,934,146 (6.77% / 10.87%)
Hi-C Contacts: 120,891,376 (54.81% / 87.95%)
 Ligation Motif Present: 29,328  (0.01% / 0.02%)
 3' Bias (Long Range): 48% - 52%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 78,989,477  (35.81% / 57.47%)
Intra-chromosomal: 41,901,899  (19.00% / 30.49%)
Short Range (<20Kb): 27,525,212  (12.48% / 20.03%)
Long Range (>20Kb): 14,374,245  (6.52% / 10.46%)