Hello all,

I am certainly new to using galaxy and I have already checked the
message boards to get some assistance on this but was unsuccessful.
Anyways, here is my problem, I have a a FASTA file of C. gigas partial
sequences. I was trying to use Galaxy's equicktandem tool to identify
micro satellites in the sequence. However, when I ran the tool it did
not yield any results. This is strange because I could visually pick
out where l thought the algorithm should have found a hit.
Additionally, trimming my collection of sequences to a single sequence
did not yield any hits.  Moreover, I created a fake sequence with very
obvious "microsatellites" and the algorithm appeared to work fine as
it identified the repeats. While I suppose it is certainly possible
that there may just not be any microsatellites in my sequence, I find
it highly unlikely and suspect something else is going on. This seemed
like such a simple tool yet I am having much difficulty in using it. I
am simply uploading my FASTA file normally and then taking that file
and using the tool. I am doing this all online through the galaxy
website not a local instance and if you would like to see yourself the
FASTA file can be downloaded at
http://genefish.wikispaces.com/crassostreome and the FASTA file is
cgigas_alpha_v0.3.2 (the collection of 272 sequences). Please help
this has been excruciatingly frustrating for me and I suspect that a
veteran Galaxy user may be able to see my error quickly.


The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:


To manage your subscriptions to this and other Galaxy lists,
please use the interface at:


Reply via email to