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Table 1 Main effects from the factorial Analysis of Variance (ANOVA). For the full list of all possible interaction terms please see the Additional file 1: Supplementary file ANOVA_FullResults.xlsx (the residual term here is from the full ANOVA)

From: An investigation of causes of false positive single nucleotide polymorphisms using simulated reads from a small eukaryote genome

Source of variation

d.f.

s.s.

m.s.

v.r.

F prob.

perm prob.

Percentage SS

Replicate stratum

1

0.01693

0.01693

8.82

   

Replicate.*Units* stratum

       

Length

5

40.79358

8.15872

4247.34

0.000

0.001

1.18

Assembly

2

1516.31545

758.15772

394688.33

0.000

0.001

43.90

Mapper

1

265.90685

265.90685

138428.09

0.000

0.001

7.70

Stringency

1

371.94519

371.94519

193630.46

0.000

0.001

10.77

MAPQ

1

55.69223

55.69223

28992.74

0.000

0.001

1.61

Variant caller

1

73.45412

73.45412

38239.38

0.000

0.001

2.13

Depth filter

1

5.92562

5.92562

3084.81

0.000

0.001

0.17

Residual

575

1.10452

0.00192

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