nuc44 - Return NUC44 scoring matrix for nucleotide sequences

Syntax

Description

ScoringMatrix = nuc44 returns the scoring matrix. The nuc44 scoring matrix uses ambiguous nucleotide codes and probabilities rounded to the nearest integer.

Scale = 0.277316

Expected score = -1.7495024, Entropy = 0.5164710 bits

Lowest score = -4, Highest score = 5

Order: A C G T R Y K M S W B D H V N

[ScoringMatrix, MatrixInfo] = nuc44 returns a structure with information about the matrix with fields Name and Order.

Note   The NUC44 scoring matrix is supplied by NCBI and is used by the BLAST suite of programs. For more information, see ftp://ftp.ncbi.nih.gov/blast/matrices/.

See Also

blosum | dayhoff | gonnet | localalign | nwalign | pam | swalign

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