Sequence alignment between HzRTE-1-1, the LSCS 1, selected lepidopteran microsatellite DNA loci and gDNA sequences. Alignment between (1) the partial Helicoverpa zea HzRTE-1 element (, minus bases 996 to 2,632), (2) the Lepidoptera Core Specific Sequence 1 (LSCS1) of van't Hof et al. , and selected examples of lepidopteran GenBank entries (3 - 11). HaD47 (GenBank:AY497338, ), HarSSR3 (GenBank:AJ504787, ), HarSSR7 (GenBank:AJ627416, ) are H. armigera microsatellite DNA markers (3 - 5), (6) HzMS1-6 (GenBank:EF152206, ) and (7) BA-ATG230 (GenBank:DQ225294, ) are markers from H. zea and Bicyclus anynana respectively. (8) and (9) are identical HaRTE elements (HaRTE-t01, Additional File 3) from introns in a cadherin gene of H. armigera (GenBank:AY714875 and GenBank:AY714876). (10) belongs to a 224 bp long partial RTE element in Trichoplusia ni (GenBank:U46130), and is located within the 2nd intron of the Preproattacin A gene from positions 908 to 1,131 (nucleotides 920 to 1,028 not shown). (11) is a partial 442 bp long RTE element in B. mori (GenBank:AB262389) and is located within positions 89,594 to 90,035 (nucleotides 89,606 to 89,930 not shown). TSD sequences are underlined, unique flanking sequence is shown in lower case. Bases identical to the HzRTE-1 sequence are denoted by dots, small gaps inserted for alignment purposes are indicated by dashes, and large gaps in the sequence are represented by '//'.