What is the orientation of the sequences in illumina paired end output file?
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4.0 years ago
Shanika • 0

In a illumina paired end sequencing output file, are both the two corresponding sequences in the same orientation (like both are in 5' to 3') or are they in different orientaions (like one in 5' to 3' and other one in 3' to 5')?

next-gen Illumina paired end • 2.3k views
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Sequence reads are always in 5'-->3' orientation. See: Orientation in paired-end sequencing? . Mappers will automatically reverse complement reads (as needed) when mapping the reads.

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7 weeks ago

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