# miseq SOP unique.seqs in your fasta file, sequence names must be unique, please correct.

**URL:** <https://forum.mothur.org/t/miseq-sop-unique-seqs-in-your-fasta-file-sequence-names-must-be-unique-please-correct/3079>\
**Category:** Commands in mothur\
**Created:** [December 31, 2016, 11:05pm UTC](https://forum.mothur.org/t/miseq-sop-unique-seqs-in-your-fasta-file-sequence-names-must-be-unique-please-correct/3079 "2016-12-31T23:05:22Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![pwmaes](https://avatars.discourse-cdn.com/v4/letter/p/ecb155/32.png) [@pwmaes](https://forum.mothur.org/u/pwmaes)\
**Post date:** [December 31, 2016, 11:05pm UTC](https://forum.mothur.org/t/miseq-sop-unique-seqs-in-your-fasta-file-sequence-names-must-be-unique-please-correct/3079/1 "2016-12-31T23:05:22Z")

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Hi,

I am working through my first batch of miseq data (have successfully ran several 454 projects). I am early on in the pipeline. Ran the make.contigs, summary and screen.seqs. My issue comes in at the unique.seqs command. I get thousands of these error and I am not sure how to go about fixing it.

\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\* is in your fasta file, sequence names must be unique, please correct.

The command finishes without crashing but the next command, count.seqs, sends up even more red flags (errors).

Any ideas?

Patrick

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**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:** [January 5, 2017, 3:38pm UTC](https://forum.mothur.org/t/miseq-sop-unique-seqs-in-your-fasta-file-sequence-names-must-be-unique-please-correct/3079/2 "2017-01-05T15:38:13Z")

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Could you post the commands you ran?