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Entropy

Shannon Entropy-One

  Entropy-Two   Entropy-One     Entropy Readme   Entropy Options  

Purpose: This tool applies phylogenetics into Shannon entropy as a measure of variation in DNA and protein sequence alignments. ENTROPY-ONE calculates the entropy at each position in one input sequence set. It can be used as a measure of the relative variation in different positions or regions of an aligned gene or protein. For more information and details, use Entropy links above.

Input
Submit your alignment
[Sample Input]
or upload your file
Options
Amino acid class equivalents Use equivalents based on chemical similarity for the calculation (ONLY for protein sequences)
Frequency Calculate the frequency of AA or NA at each position
N-linked glycosylation sites Treat potential N-linked glycosylation sites separately using 'O' (ONLY for protein sequences)
Non-standard AA or NT characters
(ambiguity codes, #, ?, etc.)
Include in the calculation as different states
Exclude
Limit region Calculate within the region between and

last modified: Mon Feb 24 12:16 2020


Questions or comments? Contact us at seq-info@lanl.gov.

 
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