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Table 13 Performance comparison between a GPU-based aligner and our hybrid aligner

From: A hybrid short read mapping accelerator

 

CUSHAW

hybrid aligner

Runtime performance

15 sec

30 sec

Clock frequency*

1.15 GHz

200 MHz

Attached memory

6 GB

4 GB

Memory I/O

384-bit GDDR5

128-bit DDR2

  1. * The clock frequency is the clock for the Tesla C2075 board and the FPGA chip, respectively. The GPU specifications are from[32].
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BMC Bioinformatics

ISSN: 1471-2105

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