# qiime2 demuxed sequences / barcode

**URL:** https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118
**Category:** Technical Support
**Tags:** barcode
**Created:** [January 17, 2021, 7:14am UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118 "2021-01-17T07:14:58Z")
**Posts on this page:** 9
**Page:** 1

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### Author: ![hey](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/h/2acd7d/32.png) [@hey](https://forum.qiime2.org/u/hey)
#### Post date: [January 17, 2021, 7:14am UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/1 "2021-01-17T07:14:58Z")

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i have 20 samples and use cutadapt demux-paired to spilt data  
the barcode information like this

 ![image](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/2X/b/bfc7a26cec47020e44b13c211764dbcc33807c0d.jpeg)  
but actually i only get 10 samples from this software like this ![image](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/2X/c/c52b85a827f3f9f56a040b75d9d33591a6f12138.png)  
and why ?  
thanks

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### Author: ![TurboQiimer](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/t/46a35a/32.png) [@TurboQiimer](https://forum.qiime2.org/u/TurboQiimer)
#### Post date: [January 17, 2021, 1:16pm UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/2 "2021-01-17T13:16:53Z")

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Hi @hey  
It sounds your metadata is not well-organized! The third column involves some identical barcode sequences and I see same story in the second column for example samples rep10 and rep 20 have the same sequences! It made the software confusing to identify correctly your samples, in my view. I think it is the point!  
Qiimer

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### Author: ![hey](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/h/2acd7d/32.png) [@hey](https://forum.qiime2.org/u/hey)
#### Post date: [January 17, 2021, 6:14am UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/3 "2021-01-17T06:14:30Z")

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hello , excuse me  
i have 20 samples and the barcode information like this

 ![image](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/2X/3/3fa39be261ac866f09dca77fb967728da270b20b.png)  
and i use the ![image](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/2X/3/3fa39be261ac866f09dca77fb967728da270b20b.png)  
but actually i only get 10 samples from the command  
 ![image](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/2X/c/c52b85a827f3f9f56a040b75d9d33591a6f12138.png)  
and why  
thanks for you answer  
Good lucky

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### Author: ![hey](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/h/2acd7d/32.png) [@hey](https://forum.qiime2.org/u/hey)
#### Post date: [January 17, 2021, 6:18am UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/6 "2021-01-17T06:18:03Z")

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sorry the command like this

 ![image](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/2X/9/986966b2a3b80045798da5c9f7f7f19ae181e7dc.png)

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### Author: ![TurboQiimer](https://forum.qiime2.org/letter_avatar_proxy/v4/letter/t/46a35a/32.png) [@TurboQiimer](https://forum.qiime2.org/u/TurboQiimer)
#### Post date: [January 17, 2021, 11:42pm UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/8 "2021-01-17T23:42:45Z")

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Thanks for the more info. Please wait for the skillful admins to come to you. Anyway, I have expressed my opinion above.  
Good luck  
Qiimer

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### Author: ![andrewsanchez](https://forum.qiime2.org/user_avatar/forum.qiime2.org/andrewsanchez/32/20160_2.png) [@andrewsanchez](https://forum.qiime2.org/u/andrewsanchez)
#### Post date: [January 20, 2021, 3:58pm UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/9 "2021-01-20T15:58:05Z")

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### Author: ![andrewsanchez](https://forum.qiime2.org/user_avatar/forum.qiime2.org/andrewsanchez/32/20160_2.png) [@andrewsanchez](https://forum.qiime2.org/u/andrewsanchez)
#### Post date: [January 20, 2021, 5:55pm UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/10 "2021-01-20T17:55:19Z")

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Hey there, @hey! 👋

As @TurboQiimer pointed out, many of your samples are being mapped to the same barcodes. Some questions I have are:

- What version of QIIME 2 are you using? Can you please share the output of `qiime info`?
- What indexing strategy was used to produce this data? Here are a couple of links to help you answer this question:
  - [unique dual indexes](https://support.illumina.com/bulletins/2018/08/understanding-unique-dual-indexes--udi--and-associated-library-p.html)
  - [combintorial dual indexes](https://cutadapt.readthedocs.io/en/stable/guide.html#demultiplexing-paired-end-reads-with-combinatorial-dual-indexes)

Once we have more information, we can determine whether you should run cutadapt w/ different options or if you're barcodes file is suspect.

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<div class="post-metadata">

### Author: ![andrewsanchez](https://forum.qiime2.org/user_avatar/forum.qiime2.org/andrewsanchez/32/20160_2.png) [@andrewsanchez](https://forum.qiime2.org/u/andrewsanchez)
#### Post date: [January 20, 2021, 5:55pm UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/11 "2021-01-20T17:55:22Z")

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### Author: ![system](https://forum-qiime2-org.s3.dualstack.us-west-2.amazonaws.com/original/3X/2/1/21af5fe23cb6f4579467c66a9ed94e55274ca7bd.svg) [@system](https://forum.qiime2.org/u/system)
#### Post date: [February 20, 2021, 11:55pm UTC](https://forum.qiime2.org/t/qiime2-demuxed-sequences-barcode/18118/12 "2021-02-20T23:55:23Z")

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