Paired-end, 101 bp sequencing was performed on the Illumina platform. All reads were aligned with the human RefSeq mRNA transcripts using BLAST. Any reads with an alignment length difference with respect to the human reference sequence of 2 or greater were removed prior to assembly. For a given pair of reads, if one sequence was filtered, its pair was also filtered. Velveth was performed as recommended. kmer was set at 31. The output files from Velveth were passed to Velvetg. After performing Velvetg, this output file was passed to Oases where the final assembly was performed. Default parameters were used for Velvetg and Oases.
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