Dear Biocore Data Team,
   
  I am working with Affy Barley chips at the moment. I have noticed that the order of probes in the .GIN file for these arrays is not the same as their order in the CDF environment, barley1.cdf, provided by Bioconductor. 
  So, for example, when analysing these arrays I am getting an output such as:
   
  16578 EBma05_SQ003_C16_s_at
4886 Contig1579_s_at
   
  However, in the barley .GIN file these probes have different order numbers.
  Is it OK, or is it a sign that probes were misplaced/misnumbered in the barley1.cdf?
  Is it a reason for concern?
   
  Thank you in advance.
  Looking forward to hearing from you,
  Lev.
   

       
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