Question: Interpret fimo results in negative strand
gravatar for anshupa.vssut
3.6 years ago by
anshupa.vssut50 wrote:

I have a simple question regarding interpreting fimo results in the negative strand. I got the following result in negative strand for transcription factor STAT3.

HNF4A   295     315     STAT3_HUMAN.H10MO.A     12.7879    -       1.15e-05        0.118   ATGCAAGCTTGGCCAAGCCC

Here Start position is 295 and end position is 315. The website of fimo mentions that for negative strand End position is less than the start position but it is not the case here.

Is the above output expected?

If yes then should I interpret the start and end in reverse direction. If no then do I need to include any parameter while running fimo to correct that.

ADD COMMENTlink modified 3.6 years ago by GenoMax95k • written 3.6 years ago by anshupa.vssut50
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