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sub-matrix.txt
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sub-matrix.txt
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# Created with the `Biostrings` R module:
# if (!requireNamespace("BiocManager", quietly = TRUE))
# install.packages("BiocManager")
# BiocManager::install("Biostrings")
# library(Biostrings)
# nsm <- nucleotideSubstitutionMatrix(match=1, mismatch=-2, baseOnly=FALSE, type="DNA")
# print(nsm)
A C G T M R W S Y K V H D B N
A 1 -2 -2 -2 -0.5 -0.5 -0.5 -2 -2 -2 -1 -1 -1 -2 -1.25
C -2 1 -2 -2 -0.5 -2 -2 -0.5 -0.5 -2 -1 -1 -2 -1 -1.25
G -2 -2 1 -2 -2 -0.5 -2 -0.5 -2 -0.5 -1 -2 -1 -1 -1.25
T -2 -2 -2 1 -2 -2 -0.5 -2 -0.5 -0.5 -2 -1 -1 -1 -1.25
M -0.5 -0.5 -2 -2 -0.5 -1.25 -1.25 -1.25 -1.25 -2 -1 -1 -1.5 -1.5 -1.25
R -0.5 -2 -0.5 -2 -1.25 -0.5 -1.25 -1.25 -2 -1.25 -1 -1.5 -1 -1.5 -1.25
W -0.5 -2 -2 -0.5 -1.25 -1.25 -0.5 -2 -1.25 -1.25 -1.5 -1 -1 -1.5 -1.25
S -2 -0.5 -0.5 -2 -1.25 -1.25 -2 -0.5 -1.25 -1.25 -1 -1.5 -1.5 -1 -1.25
Y -2 -0.5 -2 -0.5 -1.25 -2 -1.25 -1.25 -0.5 -1.25 -1.5 -1 -1.5 -1 -1.25
K -2 -2 -0.5 -0.5 -2 -1.25 -1.25 -1.25 -1.25 -0.5 -1.5 -1.5 -1 -1 -1.25
V -1 -1 -1 -2 -1 -1 -1.5 -1 -1.5 -1.5 -1 -1.33 -1.33 -1.33 -1.25
H -1 -1 -2 -1 -1 -1.5 -1 -1.5 -1 -1.5 -1.33 -1 -1.33 -1.33 -1.25
D -1 -2 -1 -1 -1.5 -1 -1 -1.5 -1.5 -1 -1.33 -1.33 -1 -1.33 -1.25
B -2 -1 -1 -1 -1.5 -1.5 -1.5 -1 -1 -1 -1.33 -1.33 -1.33 -1 -1.25
N -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25 -1.25