HI All.
BOWTIE2 OUTPUT:
I have a set of 35 paired sequences.
25 (71.43%) aligned concordantly 0 times.
1 (2.86%) aligned concordantly 1 time.
9 (25.71%) aligned concordantly >1 times.
When I look in the SAM output manually, at the lines with the 'CP' tag, I cant find how to see what paired-end alignments has aligned concordantly 1 time, and which paired-end alignments did align >1 times. Were do I see that? I don't spot any differences.
Thanks in advance,
BOWTIE2 OUTPUT:
I have a set of 35 paired sequences.
25 (71.43%) aligned concordantly 0 times.
1 (2.86%) aligned concordantly 1 time.
9 (25.71%) aligned concordantly >1 times.
When I look in the SAM output manually, at the lines with the 'CP' tag, I cant find how to see what paired-end alignments has aligned concordantly 1 time, and which paired-end alignments did align >1 times. Were do I see that? I don't spot any differences.
Thanks in advance,
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