Processing Report

HiCUP_output/Sample-1.A006.C8DRAANXX.s_2.r_1_2

17-27-31_15-03-2016


Truncating and Mapping

  Read 1 Read 2
Total Reads 34760244 34760244
Not Truncated 24339936 24236337
Truncated 10420308 10523907
Too short to map 579570 539500
Average length of truncated sequence 65.67 66.68
  Read 1 Read 2
Unique Alignments 25926210 25637256
Multiple Alignments 5230796 5121683
Failed To Align 3023668 3461805
Paired 18473566 18473566

Filtering

  Di-Tag Count
Valid Pairs 13106391
Invalid Pairs 5367175
Same Circularised 220527
Same Fragment Dangling Ends 408217
Same Fragment Internal 2075370
Re-ligation 961388
Contiguous Sequence 65086
Wrong Size 1636587
Total Pairs 18473566

Di-tag length Distribution


De-duplication

Percentage uniques: 99.17

  All Di-Tags Unique Di-Tags
Read Pairs 13106391 12998003
Cis-close (< 10Kbp) 2063334 2043926
Cis-far (> 10Kbp) 8173491 8107586
Trans 2869566 2846491