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Closing the gaps in the Streptococcus sanguis genome
Virtual PCR: Blast contig ends against a Streptococcus
genome
So, extract ends from all the contigs, download
the genomic sequence of Streptococcus pyogenes, install Blast
on your own computer, and Blast the ends against the genomic sequence.
This is what you get:
 ... and tens
of megabytes of more of the same. The answers you seek are buried
in this output. But it would take just as long to read through it
as to do the 160,000 PCR reactions!
How can you extract the wheat from the enormous amount of chaff? You
need a way of automating the process of picking out the matches you
want.
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