Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 20 threads; java version "1.8.0_131"; scripts/juicer.sh -t 20 -D /oak/stanford/groups/akundaje/marinovg/papers/2022_Tetrahymena-Hi-C/2022-05-24-figures/juicer-Cell_24_hpm_Hi-C_rep1-GSM4161197-MIC -d /oak/stanford/groups/akundaje/marinovg/papers/2022_Tetrahymena-Hi-C/2022-05-24-figures/juicer-Cell_24_hpm_Hi-C_rep1-GSM4161197-MIC -p /oak/stanford/groups/akundaje/marinovg/genomes/Ciliates/Tetrahymena_thermophila_SB210-E-JCVI_TeTherMIC_3/Tetrahymena_thermophila_SB210-E-JCVI_TeTherMIC_3.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/genomes/Ciliates/Tetrahymena_thermophila_SB210-E-JCVI_TeTherMIC_3/bwa-indexes/Tetrahymena_thermophila_SB210-E-JCVI_TeTherMIC_3.fa                                                                                                                                                                                                                                                            
Sequenced Read Pairs:  44,630,753
 Normal Paired: 19,772,728 (44.30%)
 Chimeric Paired: 19,374,795 (43.41%)
 Chimeric Ambiguous: 3,714,110 (8.32%)
 Unmapped: 1,769,120 (3.96%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 39,147,523 (87.71%)
WARN [2024-02-24T00:23:58,844]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 33,601,015 (75.29%)
PCR Duplicates: 5,546,508 (12.43%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 124,769,503
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 2,358,313 (5.28% / 7.02%)
Hi-C Contacts: 31,242,702 (70.00% / 92.98%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 7,302,684  (16.36% / 21.73%)
Intra-chromosomal: 23,940,018  (53.64% / 71.25%)
Short Range (<20Kb): 7,603,353  (17.04% / 22.63%)
Long Range (>20Kb): 16,298,168  (36.52% / 48.50%)