Hi, I have noticed in HG19, there are sometimes a segment of sequence that are in lower case? Does this have a special meaning?
Thanks
Thanks
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Often, sequence in loweracse is repetative. It's been soft masked so you can distinguish it from unique sequence -
What about those characters masked with "N", I thought those mean repeats too?
BTW how does aligner like BWA take care "N"s, if it sees Ns in the reference does it automatically ignore those segment?Comment
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Can you kindly point out which paper it is please?Comment
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