Fig. 4

Miropeat comparison of eight E. cuniculi EXT blocks (threshold 250). The detected repeats correspond to CDSs classified into four distinct inter gene families (interAE, interB, interC and interD). EXT1 sequence was extracted from Iα end, EXT2 from IIα, EXT3 from Xβ, EXT4 from XIα, EXT5 from VIIα, EXT6 from Xα, EXT7 from VIIIβ and EXT8 from VIα (all these chromosome ends refer to Genoscope genome release). EXT9 was extracted from entry HG967528 (IXα new consensus) and EXT10 from entry HG967526 (IIIβ new consensus). EXT7 and EXT8 were too divergent from other EXT blocks to be presented on the diagram, at the used threshold value. The A and E repeats are located inside the same CDS that is therefore designated as interAE. The E repeat is more variable than A. Some similarity exists between InterAE and InterB proteins (PfamA domain DUF1609). Only two EXT blocks (EXT2 and EXT3) harbour C-type sequences but other copies of these sequences are found in the core regions of chromosomes IX, X and XI. One divergent interC copy has been identified in EXT7. As many recombination sites are mapped within interD genes, D repeat have been separated into two parts D1 and D2