## Table 5 |
|||||||

Comparison of several SNP filtering criteria and ADT design scores in true-positive
and false-positive SNPs |
|||||||

SNP |
No of SNPs |
ADT design score |
Average quality score of reference |
SNP quality score of reference |
SNP mapping quality score |
Read mapping depth |
Folded variant frequency |

True-positive | 2,765 | 0.974 ± 0.050^{(a)} |
54.9 ± 9.4 | 59.2 ± 6.6 | 34.3 ± 1.6 | 18.4 ± 9.3 | 0.39 ± 0.11 |

False-positive | 2,655 | 0.971 ± 0.053 | 54.3 ± 10.1 | 59.1 ± 7.1 | 33.7 ± 2.0 | 31.7 ± 18.0 | 0.34 ± 0.11 |

P value of t test |
0.0597 | 0.0136* | 0.4553 | <0.0001** | <0.0001** | <0.0001** |

(a) average ± standard deviation; * and ** represent statistical significance at 0.05 and 0.01 probability level, respectively.

You * et al.*

You * et al.* *BMC Genomics* 2012 **13**:354 doi:10.1186/1471-2164-13-354