Hello all,

Is it fine if I stitch all the 167 contigs from my genome into 1 single fasts file?

Are there any tools which can be employed for this purpose.

I have a strain of bacteria with 167 contigs and I want to stitch them up together under 1 single FASTA header.

Thanks a lot

Cheers
Optimist
It's not illegal, but that was possibly not what you meant ;) For most  other use-cases it is definitely **not** fine. I'll just give you some hints:

 - You cannot tell which sequence is belonging to which contig anymore
 - You don't know the natural order of contigs
 - You are creating artificial chimeric sequences at the transitions
 - Sequences can come from different replicons
 - ....

 - You can possibly try to scaffold the contigs if there are additional long-range sequencing libraries (Fosmid, pacbio, ...) (SSPACE is the program)
 - You can keep the contigs as they are in a single multi-fasta file
 - If you still think you need to do this, you need to re-think the reason. There is probably a problem with your approach.