Seed sequences should be in FASTA format and models should be in HMMER ascii or SAM binary format. HMM query Query seed sequence    Query model                             SAM binary/ascii format              HMMER ascii format              Sequence query Query sequence (fasta)              Users are advised to build the model themselves using the SAM or HMMER package and use the first submission option. The server can be busy and it can take considerable time to build the model from a seed sequence. A model will be built for your query sequence using SAM's target99 with default option parameters. The script w0.5 is used to create the final model from multiple alignment.
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