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Annotation of a few domains
Input data:
See Help for expected format.
PFAM accession number:
Do not enter more than 10 domains.
Sequences in Fasta format:
>SeqID_1
sequence_1
>SeqID_2
sequence_2
Upload a Fasta file:
Parameters:
Parameters settings: hits are filtered by the E-value. DAMA reconstructs the most likely architecture.
Model library:
Reduced (≤50 models/domain)
Complete (≤350 models/domain)
E-value threshold for MetaCLADE:
E-value set to 1e
-3
by default.
Results with E-value greater than 1 are automatically filtered out.
Reconstruction of domain architectures with DAMA:
Yes
No
E-value threshold for DAMA:
E-value set to 1e
-10
by default. We advice you to avoid an E-value higher than 1e
-5
.
Results with E-value greater than or equal to 1 are automatically filtered out.
Number of amino acids allowed in the domain overlapping:
Range set to 30 by default. We advice you to avoid a range higher than 30.
Proportion of domain overlapping allowed (%):
Proportion set to 50% by default. We advice you to avoid a proportion higher than 50%.
Generate hmm logo (this job can be run later):
Yes
No
Job name:
Optional and used to store your job details.
E-mail address:
Optional and used to send your job details.
It uploads a precalculated example, you can choose whether or not to use DAMA. All other parameters are defined with default values.