Chris Evelo answer would be sufficient to predict if you have a small data of EST if you have a large data it would be tedious .. Take a look of following publications hopefully you could find out wich way to go..good luck.!
Zhipeng Qu and David Adelson from the University of Adelaide published an nice pipeline a few years ago for doing exactly what you want: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0042638