I have some FASTQ files in two datasets which are sequences from 16Srna region. The first dataset is amplicons form V4 region and the second is V3-V4 region.
However all the reads are 250 nucleotides long, whereas one region is strictly included in the other. So what is the biological meaning of the length?
I'm expecting reads to have the same length as the sequenced/amplified region. I don't know the size of the regions but one is obviously longer than the other.
Thank you (I thought it was better to ask here rather than on bioinformatics.stackexchange.com)