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Old 04-06-2011, 04:15 AM   #1
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Location: Pune, India

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Default Why so many unaligned reads inspite of "similarity" of any 2 human genomes?


I apologize for my potentially "silly" question. However I've been playing around with data from the 1000genomes project, and had a look at quite a few of the alignment files that they provide on their FTP link. One thing struck me:

In the SAM files pertaining to the chromosomes of the individuals, the avg. no. of variations between the aligned reads and the reference is between 5-10%. Also, there is a good percentage of reads (greater than 10%) that remain unaligned. However, its said too often that "the similarity between the DNA of any 2 human beings is greater than 99%".

Well, something doesn't add up!

Last edited by nadir; 04-06-2011 at 04:17 AM. Reason: spelling and grammatical errors
nadir is offline   Reply With Quote

human genome, sam, unaligned reads

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