/Martin Hirst/mapping_coverage/PX0720_AAGCGA_10_lane_gembs
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SAMPLE PX0720_AAGCGA_10_lane_gembs
Read Level Counts
| Type |
#reads |
% |
#bases |
% |
| Total |
1558207023 |
100% |
216915453828 |
100% |
| Mapped |
1529701089 |
98.17 % |
212639563728 |
98.03 % |
| Passed |
512883289 |
32.91 % |
60116893728 |
27.71 % |
| NotPassed |
1016817800 |
65.26 % |
152522670000 |
70.31 % |
| |
|
|
|
|
| LowMAPQ |
686263216 |
44.04 % |
102939482400 |
47.46 % |
| MateUnmapped |
28505934 |
1.83 % |
4275890100 |
1.97 % |
| Duplicate |
49784044 |
3.19 % |
7467606600 |
3.44 % |
| BadOrientation |
0 |
0.00 % |
0 |
0.00 % |
| LargeInsertSize |
6517150 |
0.42 % |
977572500 |
0.45 % |
| |
|
|
|
|
| NotCorrectlyAligned |
274253390 |
17.60 % |
41138008500 |
18.96 % |
| Unmapped |
28505934 |
1.83 % |
4275890100 |
1.97 % |
Base Level Counts
| Bases |
# |
% |
| Total |
76847528700 |
100% |
| Passed |
55199256616 |
71.83 % |
| Trimmed |
1939919270 |
2.52 % |
| Clipped |
4010610326 |
5.22 % |
| Overlapping |
12720024646 |
16.55 % |
| LowQuality |
2977717842 |
3.87 % |
Coverage and Quality
| Coverage Distribution |
Quality Distribution |
 |
 |
| GC/Coverage Heatmap |
Non-CpG Read Profile |
 |
 |