title: Illumina sequencing of Gonystylus bancanus genomic fragment library
design: DNA was extracted from 3-5g of inner bark tissue.The DNA samples were visualized and quantified on a check gel before sonication for 10 min and run on a 12% PAGE.  The 400bp DNA fraction was excised and eluted from the gel slice overnight at 4 °C in 300 ul of elution buffer (5:1, LoTE buffer (3 mM Tris-HCl, pH 7.5, 0.2 mM EDTA)-7.5 M ammonium acetate) and purified using a QIAquick purification kit (Qiagen, Cat#28104).  Single-end (SET) library was constructed using Illumina genomic DNA prep kit by following company protocols (Illumina, cat# FC-102-1002).  Clusters were generated on the Illumina cluster station (Illumina, cat# FC-103-1002) and sequence was run on Illumina 1G Analyzer following the manufacturer's instructions (Illumina, cat# FC-104-1003).   The SET reactions generated two files, one containing the base calls and the other containing the quality of those base calls.  R. Warren provided a script to trim the low quality data, using these two files.