# How to merge Paired end sequencing while overlap is short

**URL:** https://forum.qiime2.org/t/how-to-merge-paired-end-sequencing-while-overlap-is-short/13449
**Category:** General Discussion
**Created:** [February 3, 2020, 7:42pm UTC](https://forum.qiime2.org/t/how-to-merge-paired-end-sequencing-while-overlap-is-short/13449 "2020-02-03T19:42:26Z")
**Posts on this page:** 1
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### Author: ![Mehrbod\_Estaki](https://forum.qiime2.org/user_avatar/forum.qiime2.org/mehrbod_estaki/32/4001_2.png) [@Mehrbod\_Estaki](https://forum.qiime2.org/u/Mehrbod_Estaki)
#### Post date: [February 4, 2020, 12:13am UTC](https://forum.qiime2.org/t/how-to-merge-paired-end-sequencing-while-overlap-is-short/13449/2 "2020-02-04T00:13:26Z")

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HI @Dawud922,  
A very recent [discussion](https://forum.qiime2.org/t/how-to-convert-dada2-plugin-so-that-it-will-merge-all-paired-reads-after-denoising/13420) regarding the justConcatenate option you mentioned which I advise against. Assuming you meant 515f/806r primer set, you are right that the overlap with a 2x150 run is not sufficient for proper merging which would explain why dada2 is failing to merge these.

> [@Dawud922](#):
>
> How should we merge R01 and R02 in my situation?

You shouldn't... I would just discard your reverse reads and use the forward reads only moving forward.

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