why do the fastq reads include adapter sequences for illumina sequencing ?

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4.9 years ago

demolidd77 ▴ 60

Hello ,

As we know , we usually do the adapter trimming step for the raw fastq data from sequencing machine .

how are these adapter sequences added into the fastq reads ?

it's welcome to share some detailed and systimatical introduction doument , thanks .

sequencing • 969 views

ADD COMMENT • link 4.9 years ago by demolidd77 ▴ 60

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to me (personally) the mean reason is because the sequenced read is longer than the insert. The insert size is not a fixed single number but rather a range, as such there will also be short(er) inserts in the library for which you will end up in the 'other side' adapter for the requested read length

ADD REPLY • link 4.9 years ago by lieven.sterck 15k

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One of the reasons: https://www.illumina.com/science/technology/next-generation-sequencing/plan-experiments/multiplex-sequencing.html

Here is an answer: Difference between Illumina indexes and Illumina barcode?

ADD REPLY • link 4.9 years ago by German.M.Demidov ★ 2.9k

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