submitting Miseq reads into SRA

Commands in mothur
1

Hello,

I have seen a couple of posts about this but they did not solve my question. I need to submit my sequences to SRA but what Miseq provided me with was:

Undetermined_S0_L001_R1_001.fastq
Undetermined_S0_L001_R2_001.fastq
Undetermined_S0_L001_I1_001.fastq

I also have independent paired fasta files for each sample, but apparently SRA needs fastq files. Has anyone had this issue before?

Thanks!

2

You will need to get the fastq files from your sequence provider. The make.sra pipeline will walk you through parsing your files to get the appropriate fastq files for submission.

Pat