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SIFT: Related Sequences Submission

# SIFT: Submit Query Sequence with Related Sequences

Submit your protein query sequence along with related sequences (not necessarily aligned) to SIFT. Your query sequence is the sequence that you would like prediction on (i.e. the sequence in which you have introduced the amino acid substitutions). The query sequence must be first among the related sequences you enter. The protein sequences will be aligned by PSI-BLAST. If your protein sequences are already aligned, submit your aligned sequences. [SIFT home page] [More info.]
Enter protein sequences
Enter your protein query sequence along with related sequences (not necessarily aligned). These sequences are assumed to be functional, and is what SIFT will base its prediction on. The normal (functional) query sequence should appear first.
Enter the name of the file containing the functional protein sequences [fasta format].
-or-
Paste in the functional protein sequences [fasta format].

Substitutions to be predicted on
Enter the substitutions to be predicted on that occur in the query sequence.
Enter the name of file containing substitutions of interest [format]:
-or-
Enter the substitutions of interest [format]:

Parameters
Remove sequences more than percent identical to query
This cleans out any polymorphic alleles (sequences that are nearly identical to your protein but already containing the substitutions of interest). The contaminating sequences may cause the substitution to be predicted as tolerated.