## [1] "dataset1_2.hicup.bam"
Truncation & Mapping
Truncation Frequency
| Total |
99,742 |
99,742 |
| Not Truncated |
92,512 |
92,628 |
| Truncated |
7,230 |
7,114 |
Truncated Read Length
| Average Length Truncated |
22.4 |
22.6 |
Mapping Efficiency
| Too Short To Map |
2,658 |
2,476 |
| Unique Alignments |
3,885 |
3,725 |
| Multiple Alignments |
12,437 |
12,679 |
| Failed To Align |
80,762 |
80,862 |
| Paired |
1,143 |
1,143 |
Truncation and Mapping Bar Plot
Filtering
Filtering Breakdown by Category
| Valid Pairs |
544 |
| Invalid Pairs |
599 |
| Same Circularised |
21 |
| Same Dangling Ends |
73 |
| Same Fragment Internal |
466 |
| Re Ligation |
39 |
| Contiguous Sequence |
0 |
| Wrong Size |
0 |
| Total Pairs |
1,143 |
Filtering Breakdown Pie Chart
Ditag Length Distribution
Deduplication
Deduplication Summary Table
| Read Pairs |
544 |
544 |
| Cis-close (<10Kbp) |
44 |
44 |
| Cis-far (>10Kbp) |
440 |
440 |
| Trans |
60 |
60 |
Deduplication Bar Chart
Analysis produced by HiCUP - a tool for mapping and performing
quality control on Hi-C data
