mm10 fasta file. Repeat of "N"s at the beginnings of chromosome sequence · Biostar

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mm10 fasta file. Repeat of "N"s at the beginnings of chromosome sequence

I am trying to do motif analysis, and I just downloaded mm10 fast file from UCSC to retrieve the entire sequences of each chromosome. However, I noticed that there is a bunch of "N"s at the beginning of each sequence of chromosome. Should I remove these "N"s before I extract my sequence of interests by using BED file? Or does the counts of position of sequence include these "N"s?

Any feedbacks will be appreciated!

rna-seq sequence genome

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written 6.4 years ago by tatsuya.s.ishikawa •

Motif analysis, what does that mean in detail? What are you trying to do?

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written 6.4 years ago by ATpoint

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