Additional file 4: of Comparative performance of transcriptome assembly methods for non-model organisms

Alignment to Ae. aegypti gene models and Ae. albopictus genomic scaffolds by contigs in the De novo assemblies and reference-based re-assemblies with increased number of input read pairs. For De novo assemblies: dataset used, number of contigs, the total number of contigs supporting Ae. aegypti gene models with multiple isoforms, the total number of contigs supporting Ae. aegypti gene models with a single isoform and the total number of contigs supporting all isoforms. Support is characterized as the best blastx match (evalue < 1e-6) with percent identity > = 70 %. For unannotated contigs from the reference-based re-assemblies: dataset used, number of contigs, total number of contigs aligning to the Ae. albopictus genome (blastn with evalue < 1e-06), median percent identity of the matches, and median alignment length with the median contig coverage in parentheses. (XLSX 40 kb)