Help with NextGene software

[Billie22]

Hello,

I am using software called NextGene to assemble chromosome sequences (using illumina sequencing) to a reference sequence. I have managed to assemble the reads against the chromosomes and can see a consensus sequence however I need to have this consensus sequence in FASTA format so I can use it in a BLAST database to search and align various mRNA sequences against it.

So far I have been unable to extract the sequence and can only view it in the NextGene viewer software.

Has anybody used NextGene before and could offer some advice?

Thanks!

[dpryan]

Isn't that a commercial application? If so, you're best off asking the company, since they normally provide support.