chops.seqs short

[westcott]

trimming sequence portions

I am looking for a command in mothur that can do following task for me I have a FASTA file (unaligned) that has suppose 1000 seq. All sequences areof varying length say some are 200 bp but some are even 850 bp. I know that anything that is beyond 550 bp is just noise because my primer set does not amplify 550 bp product at all in first place. so I want to kill portion of sequences that are beyond 550 bp because it is just noise. But I want to retain remaining front portion of sequence. So if …

Granted! Look for the short parameter in chop.seqs version 1.14.0