Hi all - So, I know which adapters I put on each sample, but the tubes got mixed up before I could label them. I went ahead with sequencing but I now need to determine which sample is which. Ordinarily, I would just use FastQC to identify adapter sequences, but none are showing up in the report (possibly because these are custom adapters). A friend of mine told me to convert my fastq files to fasta, then use bowtie to find how many times the adapter sequence comes up in the file, but I can't figure out how to do that (although I have converted the files to FASTAs). Anyone know how I might be able to do this, or know another way of determining which sample was labeled with each adapter?