Thermococcales genome parameters defined in this study. For each parameter, a chart for genome pairs (tg, T. gammatolerans; tk, T. kodakaraensis; ton, T. onnurineus; pab, P. abyssi; pf, P. furiosus; ph, P. horikoshii) is shown in the upper part of the panel, and a table of data used to build the chart is shown in the lower part of the panel. (a) Cross-genome average CDS identity. Values were determined by compiling identity percentage of each gene first hit in a BLASTP full genome cross-match, using 80% alignment length and 0.3 of maximum bit score threshold values (see Materials and methods). Values were then averaged by the total number of similar genes in each pair. (b) Percentage of similar (conserved) genes for each genome pair. Numbers of similar genes were determined as in (a). The number of conserved genes in each genome pair was then averaged by half of the sum of the total number of genes from both genomes. (c) Genome pair values of least squares line of best fit determination coefficients (R2) for synteny block length distribution (Figure 2, left bottom). (d) Total number of recombination events for genome pairs. These numbers are actually the total number of synteny blocks + 1 within each genome pair. (e) Average recombinations per gene (ARG) for genome pairs. The total number of recombination values (from (d)) was normalized by the number of conserved genes in each pair.