1.基本信息
质控结果
| 样本 |
sample |
| Read长度 |
150:150 |
| 原始Read数 |
853,942,950 |
| Clean Read数 |
851,531,716 |
| Clean Read比例 |
99.72% |
| 原始Read Q20 |
95.36% |
| 原始Read1 Q20 |
96.01% |
| 原始Read2 Q20 |
94.71% |
| 原始Read Q30 |
86.35% |
| 原始Read1 Q30 |
87.62% |
| 原始Read2 Q30 |
85.09% |
| 原始Read GC比例 |
41.45% |
| Clean Read Q20 |
95.39% |
| Clean Read1 Q20 |
96.02% |
| Clean Read2 Q20 |
94.77% |
| Clean Read Q30 |
86.39% |
| Clean Read1 Q30 |
87.63% |
| Clean Read2 Q30 |
85.14% |
| Clean Read GC比例 |
41.44% |
| Read1 AT分离比例 |
0.20% |
| Read2 AT分离比例 |
0.10% |
| Read1 GC分离比例 |
0.20% |
| Read2 GC分离比例 |
0.10% |
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 |
99.31% |
| PE比对率 |
99.16% |
| 唯一序列比例 |
94.81% |
| 重复序列比例 |
1.81% |
| 错配率 |
1.06% |
| 插入片段 |
371.9 |
| 平均测序深度(去除重复) |
42.57 |
| 覆盖度(>=1X) |
99.08% |
| 覆盖度(>=2X) |
98.95% |
| 覆盖度(>=3X) |
98.83% |
| 覆盖度(>=4X) |
98.71% |
| 覆盖度(>=5X) |
98.58% |
| 覆盖度(>=10X) |
97.98% |
| 覆盖度(>=20X) |
97.02% |
| 覆盖度均一性(>0.2f) |
98.08% |
插入片段
深度分布
3.变异检测
变异统计
| 样本 |
sample |
| SNP个数 |
3,866,081 |
| dbSNP比例 |
99.2% |
| 未知SNP |
30,876 |
| 未知SNP比例 |
0.8% |
| Ti/Tv |
2 |
| INDEL个数 |
936,637 |
| dbINDEL比例 |
97.31% |
4.变异评价
SNP评价
| Threshold |
True-pos-baseline |
True-pos-call |
False-pos |
False-neg |
Precision |
Sensitivity |
F-measure |
| 1 |
3,201,433 |
3,201,440 |
16,177 |
8,817 |
0.9950 |
0.9973 |
0.9961 |
| None |
3,201,433 |
3,201,440 |
16,196 |
8,817 |
0.9950 |
0.9973 |
0.9961 |
INDEL评价
| Threshold |
True-pos-baseline |
True-pos-call |
False-pos |
False-neg |
Precision |
Sensitivity |
F-measure |
| 15 |
476,806 |
476,807 |
3,328 |
4,456 |
0.9931 |
0.9907 |
0.9919 |
| None |
476,984 |
476,985 |
3,554 |
4,278 |
0.9926 |
0.9911 |
0.9919 |
