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Pyro-Align is a multiple alignment program specifically designed forpyrosequencing reads of huge number. Multiple sequence alignment is shown to beNP-hard and heuristics are designed for approximate solutions. Multiplesequence alignment of pyrosequenceing reads is complex mainly because of 2factors. One being the huge number of reads, making the use of traditionalheuristics,that scale very poorly for large number, unsuitable. The secondreason is that the alignment cannot be performed arbitrarily, because theposition of the reads with respect to the original genome is important and hasto be taken into account.In this report we present a short description of themultiple alignment system for pyrosequencing reads.

Pyro-Align: Sample-Align based Multiple Alignment system for Pyrosequencing Reads of Large Number