Detecting Key Structural Features within Highly Recombined Genes
Figure 6
Module Maps and Module Rearrangements
Shown (right panel) is the module content (column Module) and nt position of the module start site (column Location) of two sof sequences (AF138799 and AF139751); this diagram constitutes a module map. Two major blocks of modules are boxed: short dashes for Modules 41, 63, 58, and 12, and long dashes for Modules 107 and 15. Arrows connecting boxes indicate their relative position within each sof allele; the corresponding aligned sequence segment is also shown (left panel). Multiple instances of occurrence of the highly repetitive Module 13 are boxed (thin lines) in order to highlight its position relative to the two major blocks of modules. The module slip threshold parameter (set to 4 nt), which is used in the iterative module correlation process, leads to the identification of sequence segments that are offset by ±4 nt sites; when the offset exceeds twice the module slip threshold parameter, an additional occurrence of that module is declared, even though the start sites of the two modules may be positioned only 8 nt apart. Module start site slippage and discrete blocks composing multiple copies of the same module are depicted in the module maps.