CLC Bio and SciEngines have announced an integration between CLC Bio's sequence analysis software and the newest model of SciEngines' FPGA-based Rivyera computers.
Instead of using heuristics, it is now possible to find exact matches between sequences at a speed of 11.5 trillion cell updates per second (CUPS) per server, approximately 3000x faster than a 3.0 GHz CPU thread.
Tim Pietruck, vice-president at SciEngines, said: 'In cases where the scientist requires highest possible analysis quality, but where ordinary computers are simply too slow, our Rivyera architecture is opening up completely new possibilities.
'With the newest features in our Smith-Waterman implementation, the speed of the Rivyera S6-LX150 and the intuitive usability of CLC Bio's front-end, we're confident that exact sequence alignment approaches executed in real-time will start to play an increasing role in modern computational biology.'
'In addition to the speed, we're confident our customers will gain tremendous value from the full-fledged feature set, including user-definable scoring matrices, support of affine gap penalties, reverse complement calculation, and mate-pair alignments,' added Lasse Görlitz, vice-president of communications at CLC Bio. He added: 'We're looking forward to see what compelling results our customers and partners potentially can achieve with this system.'