Additional file 1: Table S1. of Inferential considerations for low-count RNA-seq transcripts: a case study on the dominant prairie grass Andropogon gerardii

Number of high quality reads by ecotype and population for 454 and HiSeq platforms. Figure S1. Workflow diagram of transcriptome assembly pipeline. Figure S2. Cumulative length of sequences and number of sequences for various k-mer values, 454 data, and the combined 454 and HiSeq data. Figure S3. N values for various k-mers and MIRA 454 and MIRA clustered assemblies. Figure S4. Ortholog hit ratio for final MIRA clustered assembly. OHR is the length of the BLASTX hit region divided by the length of the protein, in our case using the S. bicolor database. OHR is an estimate of the percent of the full length protein sequence represented in the assembly. An OHR of 1 indicates a potential full length transcript. (DOCX 230 kb