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Search: Posts Made By: Richard Finney
Forum: Bioinformatics 03-28-2016, 08:57 PM
Replies: 4
Views: 3,443
Posted By Richard Finney
What is your goal? What program is reporting...

What is your goal?

What program is reporting the warning?

Check the manual for your alignment software and check the notes on when it produces an "SA" tag.

Read one is one mate pair.
The...
Forum: Bioinformatics 03-28-2016, 07:05 PM
Replies: 4
Views: 3,443
Posted By Richard Finney
3rd read flag value 401 has not primary alignment...

3rd read flag value 401 has not primary alignment bit.

2nd read has "SA" tag:
SA is : Other canonical alignments in a chimeric alignment, formatted as a semicolon-delimited list: ( rname...
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