Hi,

I have reads from Illumina paired-end run mapped against reference genome using Bowtie. Is there a Galaxy tool which would allow me to extract gene names from the mapped chromosomal regions? In this case I have cat genome, example of the output row is bellow.

Thanks for anymhelp,
Daniel

HWUSI-EAS610_110227_00028:5:1:7767:999#0	99	chrE2	27900093	255	82M	=	27900139
128
NACCTGTTATGTACTAAGAAGCTTATTCTCCCANNNNNNCTNNNNNNNNNCATATGTNGNGNNNNNNNNNNNNNNNNNNNAA	##################################################################################	XA:i:2	MD:Z:0A17T14T0G0C0T0G0A2C0A0T0C0A0A0A0G0G7G1T1A0C0C0C0C0T0T0A0G0T0G0C0C0C0G0T0G0A0T2	NM:i:38

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Daniel Elleder, Ph.D.
Postdoctoral fellow
Center for Infectious Disease Dynamics
Pennsylvania State University
613 Mueller Laboratory
University Park, PA 16802
tel: (814) 867-2122