Hi all
A naive question.
I want to test how many reads contain the segment of 'AAAAA'?
Is this command work?
grep 'AAAAA' -c sample1.fastq
Q1:
If it is OK. why the counts result is different from the statistic of 'AAAAA' on the Kmer content slides in FASTQC software ?
Q2:
How to how many reads contain the segment of >5A? ('A' continously more than 5 times sth like AAAAAAA,AAAAAAAAAA)
Q3:
If I want to count the reads not only contain 'AAAAA' but also with end of 'AAAAA'
I mean ACTG..........AAAAA.
How could I do it?
A naive question.
I want to test how many reads contain the segment of 'AAAAA'?
Is this command work?
grep 'AAAAA' -c sample1.fastq
Q1:
If it is OK. why the counts result is different from the statistic of 'AAAAA' on the Kmer content slides in FASTQC software ?
Q2:
How to how many reads contain the segment of >5A? ('A' continously more than 5 times sth like AAAAAAA,AAAAAAAAAA)
Q3:
If I want to count the reads not only contain 'AAAAA' but also with end of 'AAAAA'
I mean ACTG..........AAAAA.
How could I do it?
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