Question: Sff File With Multiple Genome
0
gravatar for Ram
7.9 years ago by
Ram0
Ram0 wrote:

Hi Does anyone have a sff file or know where I can find sff file with short reads sequenced from multiple genomes, with primer (forward and reverse), target Start and Stop position in genome and MID info.

Cheers

genome multiple primer • 2.1k views
ADD COMMENTlink modified 7.4 years ago by SES8.2k • written 7.9 years ago by Ram0

What do you want to do?

ADD REPLYlink written 7.9 years ago by Manu Prestat3.9k

I want to run AVA software for single sff file and then do the mapping with different reference sequence. For this, I guess, two different DNA library preparation need to be sequenced in a single run giving single output sff file, which I don't have. So looking out for the sff file with short reads from multiple genome. Please let me know if anyone has such sff file.

ADD REPLYlink written 7.9 years ago by Ram0
0
gravatar for Steve Moss
7.9 years ago by
Steve Moss2.3k
United Kingdom
Steve Moss2.3k wrote:

SFF files are produced from 454 sequencing runs! See here for more information http://www.mathworks.com/matlabcentral/fx_files/22864/1/content/sffdemo.html

You can download SFF files from the NCBI Sequence Read Archive http://trace.ncbi.nlm.nih.gov/Traces/sra/

ADD COMMENTlink written 7.9 years ago by Steve Moss2.3k
0
gravatar for SES
7.8 years ago by
SES8.2k
Vancouver, BC
SES8.2k wrote:

Ram,

You may want to find a metagenomic study of interest, for example an analysis of bacterial communities in the Baltic Sea. From there, you can find the associated 454 sequence data. I don't completely understand what you are trying to do, but I hope that helps.

ADD COMMENTlink written 7.8 years ago by SES8.2k
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