Incorporate poly-adenylation sites into assembler

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Using poly-A site lists will improve definition of transcript ends and enable 
transcripts to be split correctly

1. Discover poly-A sites using RNA-Seq, ChIP-Seq, etc
2. Add to known DB of poly-A sites
3. Incorporate poly-A DB into assembly step

Original issue reported on code.google.com by matthew....@gmail.com on 9 Dec 2011 at 5:11