Distribution of effects on transcript accumulation in lola microarrays. Graphical representation of data from lola microarray experiment. Each gray dot represents the mean ratio of normalized feature hybridization for lola mutant/wild type from seven experiments, presented as a scatter plot of log2(adjusted P-value) versus log2(fold change) for each cDNA. Points above the horizontal line (circled in black) are statistically significant with the false discovery rate controlled to 0.05 (which, for this analysis, roughly corresponded to adjusted P < 0.0028). The six cDNAs corresponding to the copia retrotransposon are highlighted in brown; other retrotransposon transcripts are in red. Features corresponding to loci also quantified by quantitative RT-PCR are in blue. Note that different cDNAs corresponding to a single locus are plotted separately; thus, for example, there is a cluster of six, independent brown spots for copia.