Selection of sequences

[njsphd]

While having multiple sequences with same sequence except one or two additional base pairs at the start or end, how to remove the duplicates (not exactly duplicates). Hope you understand my point.

Please find the following example sequences. I just need to select one sequence from the 5 sequences, the longest one COC9.

COC5 AAAAAGCAGGGTCACCTTGTGTCCTTAAA
COC6 AAAAAGCAGGGTCACCTTGTGTCCTTAAAC
COC7 AAAAAGCAGGGTCACCTTGTGTCCTTAAACC
COC8 AAAAAGCAGGGTCACCTTGTGTCCTTAAACCT
COC9 AAAAAGCAGGGTCACCTTGTGTCCTTAAACCTA

[rhinoceros]

usearch -derep_prefix input.fasta -output derepped.fasta

USEARCH

[njsphd]

usearch -derep_prefix input.fasta -output derepped.fasta

USEARCH

Thanks rhinoceros.,

But i am new user to this type of commands. I am using windows platform. I have downloaded the program usearch from the website as you just mentioned. But while running the programme, the programme is closing immediately. Please help me regarding this,

Thanks in advance.

[rhinoceros]

I can't really help you there. I haven't used Windows for many years. Did you read the manual? If you never used command line before also see this section.

Good luck

[njsphd]

Thanks

Thanks Rhinoceros.
It got worked. I have done as the guidelines provided. Thank you verymuch. I was searching like this for the past ten days. Finally i got here from you. Thank you verymuch once again.