Mitochondrial DNA s are getting integrated into nuclear DNA as NUMTS. I want to know how many copies of 16 S r_RNA genes are integrated into human and chicken nuclear DNA /
The simplest way to determine this is to take the mtDNA 16S human nucleotide sequence and then go to the NCBI website and blast that sequence against the human reference. To find that website simply google "NCBI BLAST". The human 16S sequence can also be obtained from NCBI. That will give you a list of all sites in the reference sequence that match the 16S gene, and there will be several.
Repeat the same process with the mtDNA 16S chicken nucleotide sequence and the chicken reference genome.
What David Samuels said, but I would do a second search with some filters turned off, and compare the results.
Under Algorithm parameters, unclick;
1)Low complexity regions filter
2) Species-specific repeats filter for ...
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