Columns of the output gtf (quantification) file do not agree between different features

Especially the first attributes, gene_id, transcript_id and locus_id, of different elements/features do not agree in there position. Although this might be in agreement with the GTF specification, I have to say that it is really annoying when working with the data.

I think, the order of transcript_id, gene_id and locus_id should be the same for all lines.