Processing Report

HiCUP_output/Sample-1.A007.C8DRAANXX.s_2.r_1_2

17-27-31_15-03-2016


Truncating and Mapping

  Read 1 Read 2
Total Reads 31000250 31000250
Not Truncated 24787262 24813011
Truncated 6212988 6187239
Too short to map 368533 338254
Average length of truncated sequence 65.01 65.94
  Read 1 Read 2
Unique Alignments 22327487 21828226
Multiple Alignments 4263821 4140992
Failed To Align 4040409 4692778
Paired 14621513 14621513

Filtering

  Di-Tag Count
Valid Pairs 7029431
Invalid Pairs 7592082
Same Circularised 157241
Same Fragment Dangling Ends 452563
Same Fragment Internal 4031859
Re-ligation 771757
Contiguous Sequence 37367
Wrong Size 2141295
Total Pairs 14621513

Di-tag length Distribution


De-duplication

Percentage uniques: 99.27

  All Di-Tags Unique Di-Tags
Read Pairs 7029431 6978457
Cis-close (< 10Kbp) 882929 876396
Cis-far (> 10Kbp) 4625450 4591811
Trans 1521052 1510250