Figure 2. Alignment of mapped reconstructed contigs against CO92 and Microtus genomes.

Reads mapped at positions A (blue) and B (green) are 231 kb apart in the linearized CO92 genome. Adjacent sequence is high coverage although only 18× and 20× is shown due to space constraints (black) for A and B, respectively. The structural variant was assembled using reads that did not map to CO92 (red). Its position is shown on the linearized Microtus 91001 chromosome where the 9,096 bp contig maps with 100% identity.