Experiment description: Juicer version 1.5.6;9 threads; java version "1.8.0_45"; /mnt/storage/home/manuriddinov/Distributive/juicer-master/CPU/juicer.sh -z /mnt/storage/home/manuriddinov/MyData/Vertebrates/genome/mm10/mm10.fa -y /mnt/storage/home/manuriddinov/MyData/Vertebrates/genome/mm10/mm10.MboI.juicer.txt -p /mnt/storage/home/manuriddinov/MyData/Vertebrates/genome/mm10/mm10.chr.sizes -d /mnt/storage/home/manuriddinov/Others/Varya/mESC_NSU_reads/wt_rep2_A11 -D /mnt/storage/home/manuriddinov/Distributive/juicer-master/CPU -t 9 -o /mnt/storage/home/manuriddinov/Others/Varya/mESC_wt_mut -n mESC_wt -q 30                                                                                                                                                                                                                                                                                                                                                                                                     
Sequenced Read Pairs:  645,552
 
Normal Paired: 521,904 (80.85%)
 
Chimeric Paired: 49,239 (7.63%)
 
Chimeric Ambiguous: 20,871 (3.23%)
 
Unmapped: 53,538 (8.29%)
 
Ligation Motif Present: 353,788 (54.80%)

Alignable (Normal+Chimeric Paired): 571,143 (88.47%)

Unique Reads: 570,613 (88.39%)

PCR Duplicates: 451 (0.07%)

Optical Duplicates: 79 (0.01%)

Library Complexity Estimate: 361,355,176

Intra-fragment Reads: 29,509 (4.57% / 5.17%)

Below MAPQ Threshold: 175,657 (27.21% / 30.78%)

Hi-C Contacts: 365,447 (56.61% / 64.04%)
 
Ligation Motif Present: 207,845  (32.20% / 36.42%)
 
3' Bias (Long Range): 77% - 23%
 
Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%

Inter-chromosomal: 42,491  (6.58% / 7.45%)

Intra-chromosomal: 322,956  (50.03% / 56.60%)

Short Range (<20Kb): 164,823  (25.53% / 28.89%)

Long Range (>20Kb): 158,130  (24.50% / 27.71%)