Figure 1. Frequency of detection of the different viruses in the studied outbreaks based on swIAV status of the nursery .
Figure 2. The figure shows the distribution of Ct values in 10 nurseries infected by each detected virus. To simplify the graphs, values for negative animals were shown as Ct=0. The letter in the X-axis indicates the farm code. Detailed values of prevalence, confidence intervals and average Cts are shown in supplementary material 1. IAV = influenza A virus; PRCV= porcine respiratory coronavirus; PRRSV= porcine reproductive and respiratory syndrome virus; SOV= swine orthopneumovirus; PCMV = porcine cytomegalovirus; PCV2 = porcine circovirus 2; PCV3 = porcine circovirus 3.