Location of Ty elements in SK1.

aThe coordinates of Ty insertion sites are based on the S288C reference genome (the June 2008 assembly from the Saccharomyces Genome Database). When a Ty insertion site exhibits a 5-bp duplication, the third and fourth bp are used as the start and end coordinates, respectively.bAlthough the family of TyURA3 and TyYER137C-RTR1 could not be determined by established criteria [11] (Figure S1D), these Tys were classified as Ty1 by Gabriel et al. (2006).cThe presence (+) or absence (−) of tRNA in the same intergenic region with a Ty is indicated.dThe target site sequence duplicated on the same strand with a Ty is indicated. N.D. indicates that the presence or absence of sequence duplication was not determined. “–” indicates that sequence duplication was not observed.eTy element is inserted in a novel SK1 LTR. The insertion site of the LTR is indicated.fTyYBL108W-YBL107C and TyTEL03L-YCL073C are located in subtelomeric regions, which are enriched with repeated sequences and are dynamic among strains [65]. Since chromosome ends are not well defined in the SK1 genome assembly, it remains to be determined which chromosome end(s) carry these Tys.gTyTEL03L-YCL073C is the same as YCLWTy5-1 in S288C.hA full-length TyEXG2-YDR262W-1 and a fragmented TyEXG2-YDR262W-2 of >1 kb in size are located adjacent to each other.iTyOMS1-HIM1 is a ∼1-kb fragmented Ty.jTyNCE103-YNL035C-1 is disrupted by TyNCE103-YNL035C-2.