First pass at implementing strand information

This calculation, based on the best hit for tblastx, is not quite right.
velvet flag uses intermediate blast results from past runs
final contig hit table includes bitscores and strand orientation.
Before adding contigs, revcomp if strand is negative.
Merge branch 'juliema'
Write results table out to foo.results.txt
Revert "Write results table out to foo.results.txt"

This reverts commit ce16c0389ca8a11a18a5d8ca43fa8e040b38601a.
Merge branch 'master' into juliema