Additional file 2 of SRAssembler: Selective Recursive local Assembly of homologous genomic regions

Table of Arabidopsis orthologs to rice queries and their aligned contigs. The contigs from twenty SRAssembler runs using rice proteins against Arabidopsis genomic sequencing reads were aligned with blastn against the Arabidopsis reference genome. The Arabidopsis orthologs (“Atgene”), their locations(“GeneStart” and “GeneStop”), and the beginning and end of their coding sequences (“ORFstart” and “ORFstop”) were identified with Araport Thalemine. If a contig from the SRAssembler run using the homologous rice protein (“Osprobe”) overlapped with an Arabidopsis gene location, this is noted in the “Contig” column, as is the percent identity with (“Identity”) and location on (“ContigStart” and “ContigStop”) the reference genome. The length of overlap between the contig and each gene locus (“ContigGeneOverlap”) and coding region (“ContigORFOverlap”) are noted, as are the fraction of the total gene and coding region lengths (“GeneCoverage” and “ORFCoverage”). (TSV 30 kb)