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which strand PacBio sequence?

Hello,

I wanted to know the sequences of PacBio are given from one strand of DNA or not? for the treatment I need to do every time the reverse-complement? Thank you

sequencing ngs pacbio
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updated by Antonio R. Franco Antonio R. Franco • written by midox midox

All sequencing technologies that I know of sequence DNA in 5'-->3' orientation. No matter what strand.

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written by GenoMax GenoMax

are you sure all reads have the same orientation? if it's exact. So it's not important to do the reverse complement.

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written by midox midox

See this for clarification.

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written by GenoMax GenoMax

ok thanks for the link but it is not very clear. "The ccs program takes multiple reads of the same SMRTbell sequence and combines them to produce one high quality consensus sequence." ok it takes many reads in the two direction like the figure but the direction of the consensus it is not clear and the consensus of what strand come from Up or down strand??

thanks

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written by midox midox

so the representation of reads in FASTA file in one orientation? or in 5'-->3' and 3'-->5' the two???

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written by midox midox

1 answer

PacBio uses a proprietary adapter that contains a bubble so both strands from a same DNA fragment can be sequenced

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written by Antonio R. Franco Antonio R. Franco

so the representation of reads are from the same strand of DNA? or I have to duplicate each reads in reverse-complement?

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written by midox midox

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