Extended Data Fig. 3: The statistics of TEMR mediated by LTR/Gypsy and LTR/Copia.
From: Leveraging a phased pangenome for haplotype design of hybrid potato
a, The density of estimated insertion time of TEMRs for LTR/Copia and LTR/Gypsy. b, The intact length of long terminal repeats in TEMRs for LTR/Copia and LTR/Gypsy. The boxes represent 75% and 25% quartiles, the central line denotes the median and the whiskers extend to 1.5 times the interquartile range. P < 2.2 × 10−16, two-tailed Student’s t-test, n = 70,000 for both LTR/Copia and LTR/Gypsy. Recently active TE events exhibit a higher degree of intact sequences and are associated with more recent TEMR events. c, The number and length of flanking homologous sequence of TEMRs for LTR/Copia and LTR/Gypsy. d, An example of a LTR/Gypsy-mediated deletion on chromosome 2 of the potato accession PG5003 genome.
