Processing Report

HiCUP_output/Sample-2.A005.C8LFMANXX.s_3.r_1_2

18-19-10_14-03-2016


Truncating and Mapping

  Read 1 Read 2
Total Reads 47405891 47405891
Not Truncated 31692250 32041603
Truncated 15713641 15364288
Too short to map 774880 730807
Average length of truncated sequence 66.87 67.53
  Read 1 Read 2
Unique Alignments 36438532 36071030
Multiple Alignments 8302457 8217328
Failed To Align 1890022 2386726
Paired 29027139 29027139

Filtering

  Di-Tag Count
Valid Pairs 23270871
Invalid Pairs 5756268
Same Circularised 322640
Same Fragment Dangling Ends 387458
Same Fragment Internal 1178281
Re-ligation 2622262
Contiguous Sequence 199562
Wrong Size 1046065
Total Pairs 29027139

Di-tag length Distribution


De-duplication

Percentage uniques: 91.34

  All Di-Tags Unique Di-Tags
Read Pairs 23270871 21256588
Cis-close (< 10Kbp) 5061309 4598792
Cis-far (> 10Kbp) 15933206 14571759
Trans 2276356 2086037