Table 5 Linkage map positions (cM) of QTL peaks detected for the sex determination locus, presence-absence of vermiculations and spots, fork length, shape variable PCA1, shape variable PCA2, weight, and condition factor (Trait column). CI_Low and CI_High are the upper and lower bounds of the 95% credible interval for map positions for each QTL peak. LG is the linkage group on which the QTL was detected. Model lists the model used for QTL mapping in r/qtl2. Positions are sex averaged map positions. LOD scores are the differences in log10 likelihoods for models assuming presence or absence of a QTL at the locus in question (reported by r/qtl2). The estimates proportion of phenotypic variance explained by each QTL peak is listed in the PVE column. Estimated additive and dominant effects for the peak in question are also listed. P-values are those obtained via the permutation test described.
TraitLGPosition (cM)CI_LowCI_HighModelLODAdditive EffectDominance EffectPVEP-value
SexSna478.5475.6682.14Binary8.5381.049−0.0450.115<0.001***
SexSna484.4382.1486.12Binary8.041.055−0.0440.108<0.001***
VermiculationSna33.000.004.49Binary6.5631.5950.2780.1910.001***
VermiculationSna321.1019.6930.18Binary4.8550.1031.0480.1450.014*
Fork LengthSna139.0036.9444.60Normal4.40118.9058.0580.1070.030*
Fork LengthSna160.2751.4866.07Normal4.22415.9109.1720.1030.043*
Fork LengthSna1257.6351.8462.03Normal4.226−11.69310.9100.1030.043*
PCA1Sna511.8310.8016.15Normal3.651−0.0050.0110.1110.156
PCA1Sna2435.9927.3044.50Normal4.259−0.003−0.0110.1280.049*
PCA1Sna334.550.006.39Normal3.5540.0080.0070.1080.184
PCA2Sna264.4745.9480.32Normal3.5940.0060.0000.1090.188
PCA2Sna3245.7527.9350.59Normal3.0410.004−0.0010.0930.451
PCA2Sna3422.820.0039.41Normal3.0870.0050.0000.0950.423
WeightSna160.2737.3772.40Normal4.05248.65729.0210.0990.062
WeightSna1257.6750.5564.15Normal4.13−40.95029.6920.1010.049*
ConditionSna160.2752.6073.11Normal3.7960.0500.0330.0930.045*
ConditionSna1260.1047.7264.15Normal3.009−0.0530.0010.0740.278