# Produce a chimera clean file?

**URL:** https://forum.mothur.org/t/produce-a-chimera-clean-file/191
**Category:** Feature requests
**Created:** [April 14, 2010, 2:09am UTC](https://forum.mothur.org/t/produce-a-chimera-clean-file/191 "2010-04-14T02:09:02Z")
**Posts on this page:** 3
**Page:** 1

<div class="post-metadata">

### Author: ![prohan](https://avatars.discourse-cdn.com/v4/letter/p/e9a140/32.png) [@prohan](https://forum.mothur.org/u/prohan)
#### Post date: [April 14, 2010, 2:09am UTC](https://forum.mothur.org/t/produce-a-chimera-clean-file/191/1 "2010-04-14T02:09:02Z")

</div>

Hey Pat,  
Do you think you could include an option that spits out a fasta file that has all chimeric sequences removed. I realize you can apply a filter - but I’d like to just get rid of the chimeras.

Thanks,  
Rohan

---

<div class="post-metadata">

### Author: ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)
#### Post date: [April 16, 2010, 11:33am UTC](https://forum.mothur.org/t/produce-a-chimera-clean-file/191/2 "2010-04-16T11:33:51Z")

</div>

The next version of mothur will give you a list sequences that it thinks are chimeric. You can then use this list with remove.seqs to get a file that only contains your good sequences.

---

<div class="post-metadata">

### Author: ![westcott](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/westcott/32/18_2.png) [@westcott](https://forum.mothur.org/u/westcott)
#### Post date: [April 21, 2010, 12:05pm UTC](https://forum.mothur.org/t/produce-a-chimera-clean-file/191/3 "2010-04-21T12:05:56Z")

</div>

In version 1.9, an .accnos file is generated containing the names of chimeric sequences that can be used with the remove.seqs command.
