Figure S1 - Fine Scale Analysis of Crossover and Non-Crossover and Detection of Recombination Sequence Motifs in the Honeybee (Apis mellifera)

Analysis of the fit to the theoretical model. Set of non recombinant fragments was used to generate 1000 negative controls comprising the same number of sequence than the recombinant set and sequences of similar size. These sequences were tested as is or extended by 40 nt on each side to generate similar set than intervening or extended set respectively. These negative controls as well as the reference set were masked for repeats and low complexity sequences. The negative controls were then tested against the reference set to search for significant patterns of size 2 to 8 nt with various RSAT option (with or without noov and purge options). The number of significant patterns is counted for each set and the frequency is plotted for each significance value. The red curve shows the expected number of false positives per dataset. False positives observed follow this curve when noov option is applied and when oligonucleotides are 4 or more nucleotides long for intervening set and 5 nt or more for extended set. (PDF)