Processing Report

HiCUP_output/Sample-2.A002.C8LFMANXX.s_3.r_1_2

18-19-10_14-03-2016


Truncating and Mapping

  Read 1 Read 2
Total Reads 47111116 47111116
Not Truncated 31237828 31646350
Truncated 15873288 15464766
Too short to map 836605 786618
Average length of truncated sequence 65.43 66.06
  Read 1 Read 2
Unique Alignments 36086617 35678265
Multiple Alignments 8345082 8251704
Failed To Align 1842812 2394529
Paired 28544901 28544901

Filtering

  Di-Tag Count
Valid Pairs 22513818
Invalid Pairs 6031083
Same Circularised 308462
Same Fragment Dangling Ends 459609
Same Fragment Internal 1428287
Re-ligation 2630424
Contiguous Sequence 194022
Wrong Size 1010279
Total Pairs 28544901

Di-tag length Distribution


De-duplication

Percentage uniques: 91.42

  All Di-Tags Unique Di-Tags
Read Pairs 22513818 20582567
Cis-close (< 10Kbp) 4911940 4471280
Cis-far (> 10Kbp) 15403286 14095464
Trans 2198592 2015823