title: Denovo assembly for pathway identification in O.Sanctum
design: 23ug of starting sample was taken for Sonication on Covaris S220 (as per the SOLiD Mate Pair  Library prep protocol), analyzed for size distribution post-sonication (on Agilent Bioanalyzer  High Sensitivity chip). Fragments were size selected at the range of 2.5-3.5kb on 0.6 %  Agarose, and size distribution was verified on 2% E-Gel. Following this the fragments were end-repaired and MPR-MPL adaptor ligated. Nick-translation was performed on circularized  adaptor ligated DNA, and digested with T7 followed by S1 Nuclease enzymes and 3’  Adenylation by P1-T and P2-T. Post ligation the sample was cleaned using Streptavidin beads.  Adaptor ligated sample was amplified with 18 cycles of PCR and size selected (range of 250bp  to 350bp using E-Gel), followed by analysis on Bioanalyzer High Sensitivity chip for assessing  library size distribution.  Library fragments were amplified on beads by emulsion PCR. One single sequence read that  covers the two original ends and the internal adapter is generated. Sequencing was  performed with two different primers, complementary to the P1 adapter and internal adapter,  respectively. The resulting read pairs occur in same direction and orientation