After several months of waiting, the sequencing run of 20 strains of our favorite species has finally been completed. There were several delays, mostly due to the upgrade of my collaborator's SOLiD sequencer to version 4. In addition there were problems with the emulsion PCR, also due to upgrades. Anyway, in the end it appears we have very good, paired-end sequence data. Preliminary analysis of one of the barcodes suggests we have about 80+% of the reads mapping to the reference genome, with extremely good coverage, about 150x.
Assembly of the 20 strains will commence next week. Then the fun begins, at least for my post doc!
