L_juvernica_non_redundant_transcripts.fas This fasta file contains a dataset of 30057 non-redundant transcripts of L. juvernica produced by the EvidentialGene pipeline. L_juvernica_HaMStR_orthologs.fas This fasta file contains sequences of 4398 L. juvernica orthologs identified by HaMStR search using the Lepidoptera core ortholog set by Kawahara and Breinholt (2014. Proc. R. Soc. B 281: 20140970). This dataset was used to design the Agilent custom microarray. L_juvernica_array_design.zip This archive contains design of the Agilent microarray with 37909 probes which was used for array-CGH. L_juvernica_CGH_log_ratio_values.csv This tab-delimited file contains results of array-CGH performed in L. juvernica, i.e. log2(M/F) values for four replicas and their mean. L_juvernica_linkage_and_chromosome_assignment_in_Bmori_and_Mcinxia.csv This tab-delimited file contains information on linkage of L. juvernica orthologs as determined by array-CGH along with their Bombyx mori and Melitaea cinxia ortholog IDs and chromosome assingments.