I posted my problem in another site but I have no answer.
Maybe you can help me with my problem
I used Blastn to align reads with contigs.
in the final report I have an alignments Strand (Plus / Plus) and Strand (Plus / Minus).
"Minus" is the reverse complement or reverse of my contig?
I know Bastn aligns both ways but do I have to consider the Strand (Plus / Minus)?
my goal is to find the parts alignment read-contigs.
but in the case (Plus / Minus), is that this alignment is valid?
thanks for your answer