Hello all,
I have aligned miRNA short reads by bowtie with -n 1 -l 18 and was expected mapped output with not less than 18 nt as i have restricted with flag -l 18 (seed). But i really not satisfied with bowtie output as i got some reads with 17M and 16M mapped with genome. Could someone please explain this why its happened ???
Thanks in advance
I have aligned miRNA short reads by bowtie with -n 1 -l 18 and was expected mapped output with not less than 18 nt as i have restricted with flag -l 18 (seed). But i really not satisfied with bowtie output as i got some reads with 17M and 16M mapped with genome. Could someone please explain this why its happened ???
Thanks in advance