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Fig. 2 | BMC Genomics

Fig. 2

From: A clone-free, single molecule map of the domestic cow (Bos taurus) genome

Fig. 2

Examples of optical contigs, within BtOM1.0, reveal a telomeric region, complex tandem repeats and heterozygous structural variants. a: Telomeric regions are defined through assembly when Rmap contigs present sharply defined edges (green arrow); example shown is chr14, BtOMcontig_8 (Fig. 3); horizontal tracks depict Rmaps (single molecule restriction maps) with boxes representing individual restriction fragments, color keyed as: (gold—agreement; red—extra cut; cyan—missing cut; and purple—compound events) based on comparisons against the consensus map (ConMap; blue track). b: An optical map contig, showing the structure of a complex tandem repeat. c: Consensus maps of optical contigs (gold tracks) aligned to BtOM1.0 (blue track) showing heterozygous structural variants distinguished by deletions and insertions; numbers on each fragment bar show restriction fragment size (Kb). The first haplotype deletion/insertion is in the region corresponding to UMD3.1_chr6 62,804,591–62,981,784, and this region encoded an ATPase and an aminophospholipid transporter (APLT). The second case is corresponding to UMD3.1 chr14 35,756,042–35,808,353. There is a ~27 Kb missing sequence in UMD3.1 chr14 at this region, and the other part of this region encoded a solute carrier organic anion transporter

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