Processing Report

HiCUP_output/Sample-1.A012.C8DRAANXX.s_2.r_1_2

17-27-31_15-03-2016


Truncating and Mapping

  Read 1 Read 2
Total Reads 35472550 35472550
Not Truncated 26472929 26422073
Truncated 8999621 9050477
Too short to map 526747 494718
Average length of truncated sequence 65.39 66.30
  Read 1 Read 2
Unique Alignments 26504291 26142222
Multiple Alignments 5362349 5264577
Failed To Align 3079163 3571033
Paired 19070455 19070455

Filtering

  Di-Tag Count
Valid Pairs 11705308
Invalid Pairs 7365147
Same Circularised 163868
Same Fragment Dangling Ends 663463
Same Fragment Internal 3810160
Re-ligation 976378
Contiguous Sequence 55368
Wrong Size 1695910
Total Pairs 19070455

Di-tag length Distribution


De-duplication

Percentage uniques: 99.18

  All Di-Tags Unique Di-Tags
Read Pairs 11705308 11609411
Cis-close (< 10Kbp) 1272882 1261011
Cis-far (> 10Kbp) 7060212 7003201
Trans 3372214 3345199