Processing Report

HiCUP_output/Sample-1.A019.C8DRAANXX.s_2.r_1_2

17-27-31_15-03-2016


Truncating and Mapping

  Read 1 Read 2
Total Reads 28583413 28583413
Not Truncated 19432306 19261576
Truncated 9151107 9321837
Too short to map 519100 488517
Average length of truncated sequence 65.11 66.38
  Read 1 Read 2
Unique Alignments 21667602 21491634
Multiple Alignments 4404215 4342639
Failed To Align 1992496 2260623
Paired 16053923 16053923

Filtering

  Di-Tag Count
Valid Pairs 11766363
Invalid Pairs 4287560
Same Circularised 223187
Same Fragment Dangling Ends 305385
Same Fragment Internal 1541376
Re-ligation 1070842
Contiguous Sequence 72067
Wrong Size 1074703
Total Pairs 16053923

Di-tag length Distribution


De-duplication

Percentage uniques: 99.08

  All Di-Tags Unique Di-Tags
Read Pairs 11766363 11658185
Cis-close (< 10Kbp) 1830414 1811982
Cis-far (> 10Kbp) 7850293 7779338
Trans 2085656 2066865