read length versus unique alignment rate
How does the read sequence length affect alignment rates? It's almost impossible to have 10 bp align uniquely, but 100 bp works fairly well. I was hoping to find some table or chart that may answer this question more definitively, but haven't been able to do so on my own.
I am mostly concerned in the context of read trimming and setting the minimum read length for mammalian genomes, but any info would be helpful.
• 3,781 views
•
link
1 answer
These two papers should be of interest:
• 0 views
•
link
Log in to answer this question.
Maybe make a graph like this: A: How to find the shortest k-mer length that is unique in a large genome