LRmapqtl prints out a histogram of the trait (identical to the one from Qstats), and the results of simple linear regression. The results are displayed in a table with seven columns. The first column indicates the chromosome, while the second gives the number of the marker on the chromosome. The name of the marker can be found in the genetic linkage map file. The next two columns correspond to the parameters in the linear model (Equation 3.2). Column three is the intercept and column four the slope of the least squares regression line fit to the data. Column five is a likelihood ratio test statistic for the model, and column six is the F statistic. Column seven is the tail probability of the F statistic assuming one and degrees of freedom in the numerator and denominator, respectively. Asterisks attached to these probabilities indicate significance of the F statistics: Significance at the 5%, 1%, 0.1% and 0.01% levels are indicated by one, two, three and four asterisks, respectively.
The results of running LRmapqtl are used in Zmapqtl for analysis models four and five (see Section 3.4.2).