Similarity between transposons and the insertion in intron 20 of the r5 PgCad1 allele.

aNucleotide position in the 3,827-bp fragment from pink bollworm cadherin (which includes the 3,120-bp insertion in the r5 allele) cloned from AGJ-1 gDNA using primers 20PgCad5 + 81PgCad3 (See Figure S8).bLYDIA_LTR, long terminal repeat retrotransposon from LYDIA, a gypsy-like endogenous retrovirus from Lymantria dispar; TED, internal part of retrotransposon TED inserted in Autographa californica nuclear polyhedrosis virus; CoeSINE4, coelacanth SINE non-long terminal repeat retrotransposon from Latimeria chalumnae; HaSE3, SINE non-long terminal repeat retrotransposon from Helicoverpa armigera; HATN3_DR, nonautonomous DNA transposon from Danio rerio; Transib-4_DBp, Transib-type DNA transposon from the Drosophila bipectinata genome; ISL2EU-3_HM, autonomous ISL2EU DNA transposon from Hydra magnipapillata.cNucleotide position in the transposon sequence.dOrientation of the insertion sequence relative to the corresponding sequence in the transposon; comp. indicates complementary.eSimilarity between the fragment sequence and the corresponding sequence in the transposon; calculated as the number of exact matches/(alignment length - total length gaps in the fragment sequence - total length of gaps in the transposon sequence + total number of gaps).fAlignment score from BLAST.