1.基本信息
质控结果
| 样本 |
Sample |
| 原始碱基数 |
11,291,464,704 |
| Read长度 |
150:150 |
| 原始Read数 |
75,276,432 |
| Clean Read数 |
74,509,504 |
| Clean Read比例 |
98.98% |
| 原始Read Q20 |
95.14% |
| 原始Read1 Q20 |
95.87% |
| 原始Read2 Q20 |
94.42% |
| 原始Read Q30 |
86.31% |
| 原始Read1 Q30 |
87.84% |
| 原始Read2 Q30 |
84.79% |
| 原始Read GC比例 |
43.48% |
| Clean Read Q20 |
95.18% |
| Clean Read1 Q20 |
95.93% |
| Clean Read2 Q20 |
94.42% |
| Clean Read Q30 |
86.34% |
| Clean Read1 Q30 |
87.89% |
| Clean Read2 Q30 |
84.8% |
| Clean Read GC比例 |
43.54% |
碱基分布
碱基质量分布
2.比对信息
比对结果
| 样本 |
Sample |
| 比对率 |
99.29% |
| PE比对率 |
98.74% |
| 唯一序列比例 |
93.02% |
| 重复序列比例 |
5.63% |
| 错配率 |
0.92% |
| 嵌合率 |
1.67% |
| 插入片段 |
302.7 |
| Read水平捕获率 |
75.41% |
| 碱基水平捕获率 |
66.31% |
| 平均测序深度(去除重复) |
100.76 |
| 覆盖度(>=1X) |
99.01% |
| 覆盖度(>=4X) |
98.17% |
| 覆盖度(>=10X) |
96.68% |
| 覆盖度(>=20X) |
92.39% |
| 覆盖度(>=30X) |
85.12% |
| 覆盖度(>=100X) |
34.29% |
| 覆盖度均一性(>0.2f) |
91.78% |
| FOLD_80_BASE_PENALTY |
2.879 |
插入片段
深度分布
3.变异检测
变异统计
| 样本 |
Sample |
| SNP个数 |
65,806 |
| dbSNP比例 |
98.92% |
| 未知SNP |
712 |
| 未知SNP比例 |
1.08% |
| Ti/Tv |
2.48 |
| InDel个数 |
7,313 |
| dbInDel比例 |
68.58% |
4.变异评价
SNP评价
| Threshold |
True-pos-baseline |
True-pos-call |
False-pos |
False-neg |
Precision |
Sensitivity |
F-measure |
| 6 |
54,670 |
54,670 |
75 |
1,127 |
0.9986 |
0.9798 |
0.9891 |
| None |
54,671 |
54,671 |
78 |
1,126 |
0.9986 |
0.9798 |
0.9891 |
InDel评价
| Threshold |
True-pos-baseline |
True-pos-call |
False-pos |
False-neg |
Precision |
Sensitivity |
F-measure |
| 8 |
4,486 |
4,486 |
384 |
741 |
0.9211 |
0.8582 |
0.8886 |
| None |
4,497 |
4,497 |
407 |
730 |
0.9170 |
0.8603 |
0.8878 |
