Dear Marcus:

If you are using Synechococcus sp. PCC 7002 sequences from the Galaxy's microbial upload tool do this:

1. Simply select all sequences you want and click "Execute" 2. Use "Text Manipulation->Concatenate Queries" to concatenate all sequences into a single dataset 3. Run MAQ

Let me know if you have further issues.

anton

On Jun 3, 2009, at 5:26 PM, Marcus Ludwig wrote:

Hi,

I want to map a set of sequences (derived from RNA) against a bacterial genome. Unfortunately, the genome of Synechococcus sp. PCC 7002 consists of one chromosome and six plasmids. In MAQ I can chose only one DNA entry for mapping. In local BLAST it was possible to generate databases consisting of several DNA entries to map the data. Does anybody have experience in mapping transcription data against complex genomes in Galaxy.

Best regards,

Marcus

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Anton Nekrutenko http://nekrut.bx.psu.edu http://galaxyproject.org