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Algorithms for Molecular Biology 7:12
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1.
Sequence Encoding
demo Fig3
demo Fig4
demo Fold
Base Sequence:
Encode
Probe Sequence:
Encode
Alphabet:
Cube zeros:
2.
Coordinate Decoding
Coordinates are real numbers between 0 and 1, type and press Enter:
Single coordinate (binary decoding)
Forward
Backward
3.
Distance Calculation
Between individual coordinates (Eq. 2):
d(
,
) =
Between USM coordinates (Eq. 3-5):
d(
Forward:
Backward:
,
Forward:
Backward:
)
=
dF
dB
=
dUSM = dF+DB-1 =
Sn
4.
Sequence MapReduced comparison