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No, it is not, because coordinates are different. BTW, you should update to more recent versions. "--no-self" is now an alias of "-D". The man page gives a better explanation.
Hello,
my question is simple. I am calling minimap2 like this
minimap2 -k15 -w5 -p0 -g10000 --no-self splitted.fa splitted.fa
Here is sample output
Why is the first line reported, since it's a self-alignment? Is it because the alignment doesn't strictly span the 5000 bp of the contig?
Thank you
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