stride-align 0.6.0

data/data/matrix_data/BLOSUM75

@@ -0,0 +1,31 @@
+#  Matrix made by matblas from blosum75.iij
+#  * column uses minimum score
+#  BLOSUM Clustered Scoring Matrix in 1/2 Bit Units
+#  Blocks Database = /data/blocks_5.0/blocks.dat
+#  Cluster Percentage: >= 75
+#  Entropy =   0.9077, Expected =  -0.6845
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  4 -2 -2 -2 -1 -1 -1  0 -2 -2 -2 -1 -1 -3 -1  1  0 -3 -2  0 -2 -1 -1 -5 
+R -2  6 -1 -2 -4  1  0 -3  0 -3 -3  2 -2 -3 -2 -1 -1 -3 -2 -3 -1  0 -1 -5 
+N -2 -1  6  1 -3  0 -1 -1  0 -4 -4  0 -3 -4 -3  0  0 -4 -3 -3  3  0 -1 -5 
+D -2 -2  1  6 -4 -1  1 -2 -1 -4 -4 -1 -4 -4 -2 -1 -1 -5 -4 -4  4  1 -2 -5 
+C -1 -4 -3 -4  9 -3 -5 -3 -4 -1 -2 -4 -2 -2 -4 -1 -1 -3 -3 -1 -4 -4 -2 -5 
+Q -1  1  0 -1 -3  6  2 -2  1 -3 -3  1  0 -4 -2  0 -1 -2 -2 -2  0  3 -1 -5 
+E -1  0 -1  1 -5  2  5 -3  0 -4 -4  1 -2 -4 -1  0 -1 -4 -3 -3  1  4 -1 -5 
+G  0 -3 -1 -2 -3 -2 -3  6 -2 -5 -4 -2 -3 -4 -3 -1 -2 -3 -4 -4 -1 -2 -2 -5 
+H -2  0  0 -1 -4  1  0 -2  8 -4 -3 -1 -2 -2 -2 -1 -2 -2  2 -4 -1  0 -1 -5 
+I -2 -3 -4 -4 -1 -3 -4 -5 -4  4  1 -3  1  0 -3 -3 -1 -3 -2  3 -4 -4 -2 -5 
+L -2 -3 -4 -4 -2 -3 -4 -4 -3  1  4 -3  2  0 -3 -3 -2 -2 -1  1 -4 -3 -1 -5 
+K -1  2  0 -1 -4  1  1 -2 -1 -3 -3  5 -2 -4 -1  0 -1 -4 -2 -3 -1  1 -1 -5 
+M -1 -2 -3 -4 -2  0 -2 -3 -2  1  2 -2  6  0 -3 -2 -1 -2 -2  1 -3 -2 -1 -5 
+F -3 -3 -4 -4 -2 -4 -4 -4 -2  0  0 -4  0  6 -4 -3 -2  1  3 -1 -4 -4 -2 -5 
+P -1 -2 -3 -2 -4 -2 -1 -3 -2 -3 -3 -1 -3 -4  8 -1 -1 -5 -4 -3 -2 -2 -2 -5 
+S  1 -1  0 -1 -1  0  0 -1 -1 -3 -3  0 -2 -3 -1  5  1 -3 -2 -2  0  0 -1 -5 
+T  0 -1  0 -1 -1 -1 -1 -2 -2 -1 -2 -1 -1 -2 -1  1  5 -3 -2  0 -1 -1 -1 -5 
+W -3 -3 -4 -5 -3 -2 -4 -3 -2 -3 -2 -4 -2  1 -5 -3 -3 11  2 -3 -5 -3 -3 -5 
+Y -2 -2 -3 -4 -3 -2 -3 -4  2 -2 -1 -2 -2  3 -4 -2 -2  2  7 -2 -3 -3 -2 -5 
+V  0 -3 -3 -4 -1 -2 -3 -4 -4  3  1 -3  1 -1 -3 -2  0 -3 -2  4 -4 -3 -1 -5 
+B -2 -1  3  4 -4  0  1 -1 -1 -4 -4 -1 -3 -4 -2  0 -1 -5 -3 -4  4  0 -2 -5 
+Z -1  0  0  1 -4  3  4 -2  0 -4 -3  1 -2 -4 -2  0 -1 -3 -3 -3  0  4 -1 -5 
+X -1 -1 -1 -2 -2 -1 -1 -2 -1 -2 -1 -1 -1 -2 -2 -1 -1 -3 -2 -1 -2 -1 -1 -5 
+* -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5 -5  1 

data/data/matrix_data/BLOSUM80

@@ -0,0 +1,25 @@
+  A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A   7  -3  -3  -3  -1  -2  -2   0  -3  -3  -3  -1  -2  -4  -1   2   0  -5  -4  -1  -3  -2  -1  -8
+R  -3   9  -1  -3  -6   1  -1  -4   0  -5  -4   3  -3  -5  -3  -2  -2  -5  -4  -4  -2   0  -2  -8
+N  -3  -1   9   2  -5   0  -1  -1   1  -6  -6   0  -4  -6  -4   1   0  -7  -4  -5   5  -1  -2  -8
+D  -3  -3   2  10  -7  -1   2  -3  -2  -7  -7  -2  -6  -6  -3  -1  -2  -8  -6  -6   6   1  -3  -8
+C  -1  -6  -5  -7  13  -5  -7  -6  -7  -2  -3  -6  -3  -4  -6  -2  -2  -5  -5  -2  -6  -7  -4  -8
+Q  -2   1   0  -1  -5   9   3  -4   1  -5  -4   2  -1  -5  -3  -1  -1  -4  -3  -4  -1   5  -2  -8
+E  -2  -1  -1   2  -7   3   8  -4   0  -6  -6   1  -4  -6  -2  -1  -2  -6  -5  -4   1   6  -2  -8
+G   0  -4  -1  -3  -6  -4  -4   9  -4  -7  -7  -3  -5  -6  -5  -1  -3  -6  -6  -6  -2  -4  -3  -8
+H  -3   0   1  -2  -7   1   0  -4  12  -6  -5  -1  -4  -2  -4  -2  -3  -4   3  -5  -1   0  -2  -8
+I  -3  -5  -6  -7  -2  -5  -6  -7  -6   7   2  -5   2  -1  -5  -4  -2  -5  -3   4  -6  -6  -2  -8
+L  -3  -4  -6  -7  -3  -4  -6  -7  -5   2   6  -4   3   0  -5  -4  -3  -4  -2   1  -7  -5  -2  -8
+K  -1   3   0  -2  -6   2   1  -3  -1  -5  -4   8  -3  -5  -2  -1  -1  -6  -4  -4  -1   1  -2  -8
+M  -2  -3  -4  -6  -3  -1  -4  -5  -4   2   3  -3   9   0  -4  -3  -1  -3  -3   1  -5  -3  -2  -8
+F  -4  -5  -6  -6  -4  -5  -6  -6  -2  -1   0  -5   0  10  -6  -4  -4   0   4  -2  -6  -6  -3  -8
+P  -1  -3  -4  -3  -6  -3  -2  -5  -4  -5  -5  -2  -4  -6  12  -2  -3  -7  -6  -4  -4  -2  -3  -8
+S   2  -2   1  -1  -2  -1  -1  -1  -2  -4  -4  -1  -3  -4  -2   7   2  -6  -3  -3   0  -1  -1  -8
+T   0  -2   0  -2  -2  -1  -2  -3  -3  -2  -3  -1  -1  -4  -3   2   8  -5  -3   0  -1  -2  -1  -8
+W  -5  -5  -7  -8  -5  -4  -6  -6  -4  -5  -4  -6  -3   0  -7  -6  -5  16   3  -5  -8  -5  -5  -8
+Y  -4  -4  -4  -6  -5  -3  -5  -6   3  -3  -2  -4  -3   4  -6  -3  -3   3  11  -3  -5  -4  -3  -8
+V  -1  -4  -5  -6  -2  -4  -4  -6  -5   4   1  -4   1  -2  -4  -3   0  -5  -3   7  -6  -4  -2  -8
+B  -3  -2   5   6  -6  -1   1  -2  -1  -6  -7  -1  -5  -6  -4   0  -1  -8  -5  -6   6   0  -3  -8
+Z  -2   0  -1   1  -7   5   6  -4   0  -6  -5   1  -3  -6  -2  -1  -2  -5  -4  -4   0   6  -1  -8
+X  -1  -2  -2  -3  -4  -2  -2  -3  -2  -2  -2  -2  -2  -3  -3  -1  -1  -5  -3  -2  -3  -1  -2  -8
+*  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8  -8   1

data/data/matrix_data/BLOSUM85

@@ -0,0 +1,31 @@
+#  Matrix made by matblas from blosum85.iij
+#  * column uses minimum score
+#  BLOSUM Clustered Scoring Matrix in 1/2 Bit Units
+#  Blocks Database = /data/blocks_5.0/blocks.dat
+#  Cluster Percentage: >= 85
+#  Entropy =   1.0805, Expected =  -0.8153
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  5 -2 -2 -2 -1 -1 -1  0 -2 -2 -2 -1 -2 -3 -1  1  0 -3 -3 -1 -2 -1 -1 -6 
+R -2  6 -1 -2 -4  1 -1 -3  0 -4 -3  2 -2 -4 -2 -1 -2 -4 -3 -3 -2  0 -2 -6 
+N -2 -1  7  1 -4  0 -1 -1  0 -4 -4  0 -3 -4 -3  0  0 -5 -3 -4  4 -1 -2 -6 
+D -2 -2  1  7 -5 -1  1 -2 -2 -5 -5 -1 -4 -4 -2 -1 -2 -6 -4 -4  4  1 -2 -6 
+C -1 -4 -4 -5  9 -4 -5 -4 -5 -2 -2 -4 -2 -3 -4 -2 -2 -4 -3 -1 -4 -5 -3 -6 
+Q -1  1  0 -1 -4  6  2 -3  1 -4 -3  1  0 -4 -2 -1 -1 -3 -2 -3 -1  4 -1 -6 
+E -1 -1 -1  1 -5  2  6 -3 -1 -4 -4  0 -3 -4 -2 -1 -1 -4 -4 -3  0  4 -1 -6 
+G  0 -3 -1 -2 -4 -3 -3  6 -3 -5 -5 -2 -4 -4 -3 -1 -2 -4 -5 -4 -1 -3 -2 -6 
+H -2  0  0 -2 -5  1 -1 -3  8 -4 -3 -1 -3 -2 -3 -1 -2 -3  2 -4 -1  0 -2 -6 
+I -2 -4 -4 -5 -2 -4 -4 -5 -4  5  1 -3  1 -1 -4 -3 -1 -3 -2  3 -5 -4 -2 -6 
+L -2 -3 -4 -5 -2 -3 -4 -5 -3  1  4 -3  2  0 -4 -3 -2 -3 -2  0 -5 -4 -2 -6 
+K -1  2  0 -1 -4  1  0 -2 -1 -3 -3  6 -2 -4 -2 -1 -1 -5 -3 -3 -1  1 -1 -6 
+M -2 -2 -3 -4 -2  0 -3 -4 -3  1  2 -2  7 -1 -3 -2 -1 -2 -2  0 -4 -2 -1 -6 
+F -3 -4 -4 -4 -3 -4 -4 -4 -2 -1  0 -4 -1  7 -4 -3 -3  0  3 -1 -4 -4 -2 -6 
+P -1 -2 -3 -2 -4 -2 -2 -3 -3 -4 -4 -2 -3 -4  8 -1 -2 -5 -4 -3 -3 -2 -2 -6 
+S  1 -1  0 -1 -2 -1 -1 -1 -1 -3 -3 -1 -2 -3 -1  5  1 -4 -2 -2  0 -1 -1 -6 
+T  0 -2  0 -2 -2 -1 -1 -2 -2 -1 -2 -1 -1 -3 -2  1  5 -4 -2  0 -1 -1 -1 -6 
+W -3 -4 -5 -6 -4 -3 -4 -4 -3 -3 -3 -5 -2  0 -5 -4 -4 11  2 -3 -5 -4 -3 -6 
+Y -3 -3 -3 -4 -3 -2 -4 -5  2 -2 -2 -3 -2  3 -4 -2 -2  2  7 -2 -4 -3 -2 -6 
+V -1 -3 -4 -4 -1 -3 -3 -4 -4  3  0 -3  0 -1 -3 -2  0 -3 -2  5 -4 -3 -1 -6 
+B -2 -2  4  4 -4 -1  0 -1 -1 -5 -5 -1 -4 -4 -3  0 -1 -5 -4 -4  4  0 -2 -6 
+Z -1  0 -1  1 -5  4  4 -3  0 -4 -4  1 -2 -4 -2 -1 -1 -4 -3 -3  0  4 -1 -6 
+X -1 -2 -2 -2 -3 -1 -1 -2 -2 -2 -2 -1 -1 -2 -2 -1 -1 -3 -2 -1 -2 -1 -2 -6 
+* -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6 -6  1 

data/data/matrix_data/BLOSUM90

@@ -0,0 +1,25 @@
+  A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A   5  -2  -2  -3  -1  -1  -1   0  -2  -2  -2  -1  -2  -3  -1   1   0  -4  -3  -1  -2  -1  -1  -6
+R  -2   6  -1  -3  -5   1  -1  -3   0  -4  -3   2  -2  -4  -3  -1  -2  -4  -3  -3  -2   0  -2  -6
+N  -2  -1   7   1  -4   0  -1  -1   0  -4  -4   0  -3  -4  -3   0   0  -5  -3  -4   4  -1  -2  -6
+D  -3  -3   1   7  -5  -1   1  -2  -2  -5  -5  -1  -4  -5  -3  -1  -2  -6  -4  -5   4   0  -2  -6
+C  -1  -5  -4  -5   9  -4  -6  -4  -5  -2  -2  -4  -2  -3  -4  -2  -2  -4  -4  -2  -4  -5  -3  -6
+Q  -1   1   0  -1  -4   7   2  -3   1  -4  -3   1   0  -4  -2  -1  -1  -3  -3  -3  -1   4  -1  -6
+E  -1  -1  -1   1  -6   2   6  -3  -1  -4  -4   0  -3  -5  -2  -1  -1  -5  -4  -3   0   4  -2  -6
+G   0  -3  -1  -2  -4  -3  -3   6  -3  -5  -5  -2  -4  -5  -3  -1  -3  -4  -5  -5  -2  -3  -2  -6
+H  -2   0   0  -2  -5   1  -1  -3   8  -4  -4  -1  -3  -2  -3  -2  -2  -3   1  -4  -1   0  -2  -6
+I  -2  -4  -4  -5  -2  -4  -4  -5  -4   5   1  -4   1  -1  -4  -3  -1  -4  -2   3  -5  -4  -2  -6
+L  -2  -3  -4  -5  -2  -3  -4  -5  -4   1   5  -3   2   0  -4  -3  -2  -3  -2   0  -5  -4  -2  -6
+K  -1   2   0  -1  -4   1   0  -2  -1  -4  -3   6  -2  -4  -2  -1  -1  -5  -3  -3  -1   1  -1  -6
+M  -2  -2  -3  -4  -2   0  -3  -4  -3   1   2  -2   7  -1  -3  -2  -1  -2  -2   0  -4  -2  -1  -6
+F  -3  -4  -4  -5  -3  -4  -5  -5  -2  -1   0  -4  -1   7  -4  -3  -3   0   3  -2  -4  -4  -2  -6
+P  -1  -3  -3  -3  -4  -2  -2  -3  -3  -4  -4  -2  -3  -4   8  -2  -2  -5  -4  -3  -3  -2  -2  -6
+S   1  -1   0  -1  -2  -1  -1  -1  -2  -3  -3  -1  -2  -3  -2   5   1  -4  -3  -2   0  -1  -1  -6
+T   0  -2   0  -2  -2  -1  -1  -3  -2  -1  -2  -1  -1  -3  -2   1   6  -4  -2  -1  -1  -1  -1  -6
+W  -4  -4  -5  -6  -4  -3  -5  -4  -3  -4  -3  -5  -2   0  -5  -4  -4  11   2  -3  -6  -4  -3  -6
+Y  -3  -3  -3  -4  -4  -3  -4  -5   1  -2  -2  -3  -2   3  -4  -3  -2   2   8  -3  -4  -3  -2  -6
+V  -1  -3  -4  -5  -2  -3  -3  -5  -4   3   0  -3   0  -2  -3  -2  -1  -3  -3   5  -4  -3  -2  -6
+B  -2  -2   4   4  -4  -1   0  -2  -1  -5  -5  -1  -4  -4  -3   0  -1  -6  -4  -4   4   0  -2  -6
+Z  -1   0  -1   0  -5   4   4  -3   0  -4  -4   1  -2  -4  -2  -1  -1  -4  -3  -3   0   4  -1  -6
+X  -1  -2  -2  -2  -3  -1  -2  -2  -2  -2  -2  -1  -1  -2  -2  -1  -1  -3  -2  -2  -2  -1  -2  -6
+*  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6  -6   1

data/data/matrix_data/NUC.4.4

@@ -0,0 +1,25 @@
+#
+# This matrix was created by Todd Lowe   12/10/92
+#
+# Uses ambiguous nucleotide codes, probabilities rounded to
+#  nearest integer
+#
+# Lowest score = -4, Highest score = 5
+#
+    A   T   G   C   S   W   R   Y   K   M   B   V   H   D   N
+A   5  -4  -4  -4  -4   1   1  -4  -4   1  -4  -1  -1  -1  -2
+T  -4   5  -4  -4  -4   1  -4   1   1  -4  -1  -4  -1  -1  -2
+G  -4  -4   5  -4   1  -4   1  -4   1  -4  -1  -1  -4  -1  -2
+C  -4  -4  -4   5   1  -4  -4   1  -4   1  -1  -1  -1  -4  -2
+S  -4  -4   1   1  -1  -4  -2  -2  -2  -2  -1  -1  -3  -3  -1
+W   1   1  -4  -4  -4  -1  -2  -2  -2  -2  -3  -3  -1  -1  -1
+R   1  -4   1  -4  -2  -2  -1  -4  -2  -2  -3  -1  -3  -1  -1
+Y  -4   1  -4   1  -2  -2  -4  -1  -2  -2  -1  -3  -1  -3  -1
+K  -4   1   1  -4  -2  -2  -2  -2  -1  -4  -1  -3  -3  -1  -1
+M   1  -4  -4   1  -2  -2  -2  -2  -4  -1  -3  -1  -1  -3  -1
+B  -4  -1  -1  -1  -1  -3  -3  -1  -1  -3  -1  -2  -2  -2  -1
+V  -1  -4  -1  -1  -1  -3  -1  -3  -3  -1  -2  -1  -2  -2  -1
+H  -1  -1  -4  -1  -3  -1  -3  -1  -3  -1  -2  -2  -1  -2  -1  
+D  -1  -1  -1  -4  -3  -1  -1  -3  -1  -3  -2  -2  -2  -1  -1
+N  -2  -2  -2  -2  -1  -1  -1  -1  -1  -1  -1  -1  -1  -1  -1
+

data/data/matrix_data/PAM10

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 10 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -8.27, Entropy = 3.43 bits
+#
+# Lowest score = -23, Highest score = 13
+#
+    A   R   N   D   C   Q   E   G   H   I   L   K   M   F   P   S   T   W   Y   V   B   Z   X   *
+A   7 -10  -7  -6 -10  -7  -5  -4 -11  -8  -9 -10  -8 -12  -4  -3  -3 -20 -11  -5  -6  -6  -6 -23
+R -10   9  -9 -17 -11  -4 -15 -13  -4  -8 -12  -2  -7 -12  -7  -6 -10  -5 -14 -11 -11  -7  -9 -23
+N  -7  -9   9  -1 -17  -7  -5  -6  -2  -8 -10  -4 -15 -12  -9  -2  -5 -11  -7 -12   7  -6  -6 -23
+D  -6 -17  -1   8 -21  -6   0  -6  -7 -11 -19  -8 -17 -21 -12  -7  -8 -21 -17 -11   7  -1  -9 -23
+C -10 -11 -17 -21  10 -20 -20 -13 -10  -9 -21 -20 -20 -19 -11  -6 -11 -22  -7  -9 -18 -20 -13 -23
+Q  -7  -4  -7  -6 -20   9  -1 -10  -2 -11  -8  -6  -7 -19  -6  -8  -9 -19 -18 -10  -6   7  -8 -23
+E  -5 -15  -5   0 -20  -1   8  -7  -9  -8 -13  -7 -10 -20  -9  -7  -9 -23 -11 -10  -1   7  -8 -23
+G  -4 -13  -6  -6 -13 -10  -7   7 -13 -17 -14 -10 -12 -12 -10  -4 -10 -21 -20  -9  -6  -8  -8 -23
+H -11  -4  -2  -7 -10  -2  -9 -13  10 -13  -9 -10 -17  -9  -7  -9 -11 -10  -6  -9  -4  -4  -8 -23
+I  -8  -8  -8 -11  -9 -11  -8 -17 -13   9  -4  -9  -3  -5 -12 -10  -5 -20  -9  -1  -9  -9  -8 -23
+L  -9 -12 -10 -19 -21  -8 -13 -14  -9  -4   7 -11  -2  -5 -10 -12 -10  -9 -10  -5 -12 -10  -9 -23
+K -10  -2  -4  -8 -20  -6  -7 -10 -10  -9 -11   7  -4 -20 -10  -7  -6 -18 -12 -13  -5  -6  -8 -23
+M  -8  -7 -15 -17 -20  -7 -10 -12 -17  -3  -2  -4  12  -7 -11  -8  -7 -19 -17  -4 -16  -8  -9 -23
+F -12 -12 -12 -21 -19 -19 -20 -12  -9  -5  -5 -20  -7   9 -13  -9 -12  -7  -1 -12 -14 -20 -12 -23
+P  -4  -7  -9 -12 -11  -6  -9 -10  -7 -12 -10 -10 -11 -13   8  -4  -7 -20 -20  -9 -10  -7  -8 -23
+S  -3  -6  -2  -7  -6  -8  -7  -4  -9 -10 -12  -7  -8  -9  -4   7  -2  -8 -10 -10  -4  -8  -6 -23
+T  -3 -10  -5  -8 -11  -9  -9 -10 -11  -5 -10  -6  -7 -12  -7  -2   8 -19  -9  -6  -6  -9  -7 -23
+W -20  -5 -11 -21 -22 -19 -23 -21 -10 -20  -9 -18 -19  -7 -20  -8 -19  13  -8 -22 -13 -21 -16 -23
+Y -11 -14  -7 -17  -7 -18 -11 -20  -6  -9 -10 -12 -17  -1 -20 -10  -9  -8  10 -10  -9 -13 -11 -23
+V  -5 -11 -12 -11  -9 -10 -10  -9  -9  -1  -5 -13  -4 -12  -9 -10  -6 -22 -10   8 -11 -10  -8 -23
+B  -6 -11   7   7 -18  -6  -1  -6  -4  -9 -12  -5 -16 -14 -10  -4  -6 -13  -9 -11   7  -3  -8 -23
+Z  -6  -7  -6  -1 -20   7   7  -8  -4  -9 -10  -6  -8 -20  -7  -8  -9 -21 -13 -10  -3   7  -8 -23
+X  -6  -9  -6  -9 -13  -8  -8  -8  -8  -8  -9  -8  -9 -12  -8  -6  -7 -16 -11  -8  -8  -8  -8 -23
+* -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23 -23   1

data/data/matrix_data/PAM100

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 100 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -1.99, Entropy = 1.18 bits
+#
+# Lowest score = -9, Highest score = 12
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  4 -3 -1 -1 -3 -2  0  1 -3 -2 -3 -3 -2 -5  1  1  1 -7 -4  0 -1 -1 -1 -9
+R -3  7 -2 -4 -5  1 -3 -5  1 -3 -5  2 -1 -6 -1 -1 -3  1 -6 -4 -3 -1 -2 -9
+N -1 -2  5  3 -5 -1  1 -1  2 -3 -4  1 -4 -5 -2  1  0 -5 -2 -3  4  0 -1 -9
+D -1 -4  3  5 -7  0  4 -1 -1 -4 -6 -1 -5 -8 -3 -1 -2 -9 -6 -4  4  3 -2 -9
+C -3 -5 -5 -7  9 -8 -8 -5 -4 -3 -8 -8 -7 -7 -4 -1 -4 -9 -1 -3 -6 -8 -5 -9
+Q -2  1 -1  0 -8  6  2 -3  3 -4 -2  0 -2 -7 -1 -2 -2 -7 -6 -3  0  5 -2 -9
+E  0 -3  1  4 -8  2  5 -1 -1 -3 -5 -1 -4 -8 -2 -1 -2 -9 -5 -3  3  4 -2 -9
+G  1 -5 -1 -1 -5 -3 -1  5 -4 -5 -6 -3 -4 -6 -2  0 -2 -9 -7 -3 -1 -2 -2 -9
+H -3  1  2 -1 -4  3 -1 -4  7 -4 -3 -2 -4 -3 -1 -2 -3 -4 -1 -3  1  1 -2 -9
+I -2 -3 -3 -4 -3 -4 -3 -5 -4  6  1 -3  1  0 -4 -3  0 -7 -3  3 -3 -3 -2 -9
+L -3 -5 -4 -6 -8 -2 -5 -6 -3  1  6 -4  3  0 -4 -4 -3 -3 -3  0 -5 -4 -3 -9
+K -3  2  1 -1 -8  0 -1 -3 -2 -3 -4  5  0 -7 -3 -1 -1 -6 -6 -4  0 -1 -2 -9
+M -2 -1 -4 -5 -7 -2 -4 -4 -4  1  3  0  9 -1 -4 -3 -1 -6 -5  1 -4 -2 -2 -9
+F -5 -6 -5 -8 -7 -7 -8 -6 -3  0  0 -7 -1  8 -6 -4 -5 -1  4 -3 -6 -7 -4 -9
+P  1 -1 -2 -3 -4 -1 -2 -2 -1 -4 -4 -3 -4 -6  7  0 -1 -7 -7 -3 -3 -1 -2 -9
+S  1 -1  1 -1 -1 -2 -1  0 -2 -3 -4 -1 -3 -4  0  4  2 -3 -4 -2  0 -2 -1 -9
+T  1 -3  0 -2 -4 -2 -2 -2 -3  0 -3 -1 -1 -5 -1  2  5 -7 -4  0 -1 -2 -1 -9
+W -7  1 -5 -9 -9 -7 -9 -9 -4 -7 -3 -6 -6 -1 -7 -3 -7 12 -2 -9 -6 -8 -6 -9
+Y -4 -6 -2 -6 -1 -6 -5 -7 -1 -3 -3 -6 -5  4 -7 -4 -4 -2  9 -4 -4 -6 -4 -9
+V  0 -4 -3 -4 -3 -3 -3 -3 -3  3  0 -4  1 -3 -3 -2  0 -9 -4  5 -4 -3 -2 -9
+B -1 -3  4  4 -6  0  3 -1  1 -3 -5  0 -4 -6 -3  0 -1 -6 -4 -4  4  2 -2 -9
+Z -1 -1  0  3 -8  5  4 -2  1 -3 -4 -1 -2 -7 -1 -2 -2 -8 -6 -3  2  5 -2 -9
+X -1 -2 -1 -2 -5 -2 -2 -2 -2 -2 -3 -2 -2 -4 -2 -1 -1 -6 -4 -2 -2 -2 -2 -9
+* -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9  1

data/data/matrix_data/PAM110

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 110 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -1.81, Entropy = 1.07 bits
+#
+# Lowest score = -9, Highest score = 12
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  3 -3 -1 -1 -3 -1  0  1 -3 -1 -3 -3 -2 -4  1  1  1 -7 -4  0 -1 -1 -1 -9
+R -3  7 -1 -4 -4  1 -3 -4  1 -3 -4  2 -1 -5 -1 -1 -2  1 -5 -4 -2 -1 -2 -9
+N -1 -1  4  2 -5  0  1  0  2 -2 -4  1 -3 -4 -2  1  0 -5 -2 -3  3  0 -1 -9
+D -1 -4  2  5 -7  1  4  0  0 -3 -6 -1 -5 -7 -3 -1 -1 -8 -5 -4  4  3 -2 -9
+C -3 -4 -5 -7  9 -7 -7 -5 -4 -3 -8 -7 -7 -6 -4 -1 -3 -9 -1 -3 -6 -7 -4 -9
+Q -1  1  0  1 -7  6  2 -3  3 -3 -2  0 -1 -6  0 -2 -2 -6 -6 -3  0  4 -1 -9
+E  0 -3  1  4 -7  2  5 -1 -1 -3 -5 -1 -3 -7 -2 -1 -2 -9 -5 -3  3  4 -2 -9
+G  1 -4  0  0 -5 -3 -1  5 -4 -4 -6 -3 -4 -5 -2  0 -2 -8 -7 -2  0 -2 -2 -9
+H -3  1  2  0 -4  3 -1 -4  7 -4 -3 -2 -4 -3 -1 -2 -3 -4 -1 -3  1  1 -2 -9
+I -1 -3 -2 -3 -3 -3 -3 -4 -4  6  1 -3  1  0 -4 -3  0 -7 -2  3 -3 -3 -2 -9
+L -3 -4 -4 -6 -8 -2 -5 -6 -3  1  6 -4  3  0 -4 -4 -3 -3 -3  1 -5 -3 -2 -9
+K -3  2  1 -1 -7  0 -1 -3 -2 -3 -4  5  0 -7 -3 -1 -1 -5 -5 -4  0 -1 -2 -9
+M -2 -1 -3 -5 -7 -1 -3 -4 -4  1  3  0  8 -1 -4 -2 -1 -6 -5  1 -4 -2 -2 -9
+F -4 -5 -4 -7 -6 -6 -7 -5 -3  0  0 -7 -1  8 -6 -4 -4 -1  4 -3 -6 -7 -4 -9
+P  1 -1 -2 -3 -4  0 -2 -2 -1 -4 -4 -3 -4 -6  6  0 -1 -7 -7 -2 -2 -1 -2 -9
+S  1 -1  1 -1 -1 -2 -1  0 -2 -3 -4 -1 -2 -4  0  3  2 -3 -3 -2  0 -1 -1 -9
+T  1 -2  0 -1 -3 -2 -2 -2 -3  0 -3 -1 -1 -4 -1  2  5 -6 -3  0 -1 -2 -1 -9
+W -7  1 -5 -8 -9 -6 -9 -8 -4 -7 -3 -5 -6 -1 -7 -3 -6 12 -2 -8 -6 -7 -5 -9
+Y -4 -5 -2 -5 -1 -6 -5 -7 -1 -2 -3 -5 -5  4 -7 -3 -3 -2  8 -4 -3 -5 -3 -9
+V  0 -4 -3 -4 -3 -3 -3 -2 -3  3  1 -4  1 -3 -2 -2  0 -8 -4  5 -3 -3 -2 -9
+B -1 -2  3  4 -6  0  3  0  1 -3 -5  0 -4 -6 -2  0 -1 -6 -3 -3  4  2 -1 -9
+Z -1 -1  0  3 -7  4  4 -2  1 -3 -3 -1 -2 -7 -1 -1 -2 -7 -5 -3  2  4 -2 -9
+X -1 -2 -1 -2 -4 -1 -2 -2 -2 -2 -2 -2 -2 -4 -2 -1 -1 -5 -3 -2 -1 -2 -2 -9
+* -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9  1

data/data/matrix_data/PAM120

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 120 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -1.64, Entropy = 0.979 bits
+#
+# Lowest score = -8, Highest score = 12
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  3 -3 -1  0 -3 -1  0  1 -3 -1 -3 -2 -2 -4  1  1  1 -7 -4  0  0 -1 -1 -8
+R -3  6 -1 -3 -4  1 -3 -4  1 -2 -4  2 -1 -5 -1 -1 -2  1 -5 -3 -2 -1 -2 -8
+N -1 -1  4  2 -5  0  1  0  2 -2 -4  1 -3 -4 -2  1  0 -4 -2 -3  3  0 -1 -8
+D  0 -3  2  5 -7  1  3  0  0 -3 -5 -1 -4 -7 -3  0 -1 -8 -5 -3  4  3 -2 -8
+C -3 -4 -5 -7  9 -7 -7 -4 -4 -3 -7 -7 -6 -6 -4  0 -3 -8 -1 -3 -6 -7 -4 -8
+Q -1  1  0  1 -7  6  2 -3  3 -3 -2  0 -1 -6  0 -2 -2 -6 -5 -3  0  4 -1 -8
+E  0 -3  1  3 -7  2  5 -1 -1 -3 -4 -1 -3 -7 -2 -1 -2 -8 -5 -3  3  4 -1 -8
+G  1 -4  0  0 -4 -3 -1  5 -4 -4 -5 -3 -4 -5 -2  1 -1 -8 -6 -2  0 -2 -2 -8
+H -3  1  2  0 -4  3 -1 -4  7 -4 -3 -2 -4 -3 -1 -2 -3 -3 -1 -3  1  1 -2 -8
+I -1 -2 -2 -3 -3 -3 -3 -4 -4  6  1 -3  1  0 -3 -2  0 -6 -2  3 -3 -3 -1 -8
+L -3 -4 -4 -5 -7 -2 -4 -5 -3  1  5 -4  3  0 -3 -4 -3 -3 -2  1 -4 -3 -2 -8
+K -2  2  1 -1 -7  0 -1 -3 -2 -3 -4  5  0 -7 -2 -1 -1 -5 -5 -4  0 -1 -2 -8
+M -2 -1 -3 -4 -6 -1 -3 -4 -4  1  3  0  8 -1 -3 -2 -1 -6 -4  1 -4 -2 -2 -8
+F -4 -5 -4 -7 -6 -6 -7 -5 -3  0  0 -7 -1  8 -5 -3 -4 -1  4 -3 -5 -6 -3 -8
+P  1 -1 -2 -3 -4  0 -2 -2 -1 -3 -3 -2 -3 -5  6  1 -1 -7 -6 -2 -2 -1 -2 -8
+S  1 -1  1  0  0 -2 -1  1 -2 -2 -4 -1 -2 -3  1  3  2 -2 -3 -2  0 -1 -1 -8
+T  1 -2  0 -1 -3 -2 -2 -1 -3  0 -3 -1 -1 -4 -1  2  4 -6 -3  0  0 -2 -1 -8
+W -7  1 -4 -8 -8 -6 -8 -8 -3 -6 -3 -5 -6 -1 -7 -2 -6 12 -2 -8 -6 -7 -5 -8
+Y -4 -5 -2 -5 -1 -5 -5 -6 -1 -2 -2 -5 -4  4 -6 -3 -3 -2  8 -3 -3 -5 -3 -8
+V  0 -3 -3 -3 -3 -3 -3 -2 -3  3  1 -4  1 -3 -2 -2  0 -8 -3  5 -3 -3 -1 -8
+B  0 -2  3  4 -6  0  3  0  1 -3 -4  0 -4 -5 -2  0  0 -6 -3 -3  4  2 -1 -8
+Z -1 -1  0  3 -7  4  4 -2  1 -3 -3 -1 -2 -6 -1 -1 -2 -7 -5 -3  2  4 -1 -8
+X -1 -2 -1 -2 -4 -1 -1 -2 -2 -1 -2 -2 -2 -3 -2 -1 -1 -5 -3 -1 -1 -1 -2 -8
+* -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8  1

data/data/matrix_data/PAM130

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 130 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -1.48, Entropy = 0.895 bits
+#
+# Lowest score = -8, Highest score = 12
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  3 -3  0  0 -3 -1  0  1 -2 -1 -3 -2 -2 -4  1  1  1 -6 -4  0  0  0 -1 -8
+R -3  6 -1 -3 -4  1 -3 -4  1 -2 -4  2 -1 -5 -1 -1 -2  1 -5 -3 -2 -1 -2 -8
+N  0 -1  4  2 -4  0  1  0  2 -2 -3  1 -3 -4 -1  1  0 -4 -2 -3  3  0 -1 -8
+D  0 -3  2  5 -6  1  3  0  0 -3 -5 -1 -4 -7 -2  0 -1 -7 -5 -3  4  3 -1 -8
+C -3 -4 -4 -6  9 -6 -6 -4 -4 -3 -7 -6 -6 -5 -3  0 -3 -8 -1 -2 -5 -6 -4 -8
+Q -1  1  0  1 -6  5  2 -2  3 -3 -2  0 -1 -6  0 -1 -2 -6 -5 -3  0  4 -1 -8
+E  0 -3  1  3 -6  2  5 -1  0 -2 -4 -1 -3 -6 -2 -1 -1 -8 -5 -3  2  4 -1 -8
+G  1 -4  0  0 -4 -2 -1  5 -3 -4 -5 -3 -4 -5 -2  1 -1 -7 -6 -2  0 -1 -2 -8
+H -2  1  2  0 -4  3  0 -3  7 -3 -3 -1 -3 -2 -1 -2 -2 -3  0 -3  1  1 -1 -8
+I -1 -2 -2 -3 -3 -3 -2 -4 -3  5  1 -2  2  0 -3 -2  0 -6 -2  3 -3 -3 -1 -8
+L -3 -4 -3 -5 -7 -2 -4 -5 -3  1  5 -4  3  1 -3 -4 -2 -2 -2  1 -4 -3 -2 -8
+K -2  2  1 -1 -6  0 -1 -3 -1 -2 -4  5  0 -6 -2 -1  0 -5 -5 -4  0  0 -1 -8
+M -2 -1 -3 -4 -6 -1 -3 -4 -3  2  3  0  8 -1 -3 -2 -1 -5 -4  1 -3 -2 -1 -8
+F -4 -5 -4 -7 -5 -6 -6 -5 -2  0  1 -6 -1  7 -5 -3 -4 -1  4 -2 -5 -6 -3 -8
+P  1 -1 -1 -2 -3  0 -2 -2 -1 -3 -3 -2 -3 -5  6  1 -1 -6 -6 -2 -2 -1 -1 -8
+S  1 -1  1  0  0 -1 -1  1 -2 -2 -4 -1 -2 -3  1  3  2 -2 -3 -2  0 -1 -1 -8
+T  1 -2  0 -1 -3 -2 -1 -1 -2  0 -2  0 -1 -4 -1  2  4 -6 -3  0  0 -2 -1 -8
+W -6  1 -4 -7 -8 -6 -8 -7 -3 -6 -2 -5 -5 -1 -6 -2 -6 12 -1 -7 -5 -7 -5 -8
+Y -4 -5 -2 -5 -1 -5 -5 -6  0 -2 -2 -5 -4  4 -6 -3 -3 -1  8 -3 -3 -5 -3 -8
+V  0 -3 -3 -3 -2 -3 -3 -2 -3  3  1 -4  1 -2 -2 -2  0 -7 -3  5 -3 -3 -1 -8
+B  0 -2  3  4 -5  0  2  0  1 -3 -4  0 -3 -5 -2  0  0 -5 -3 -3  3  2 -1 -8
+Z  0 -1  0  3 -6  4  4 -1  1 -3 -3  0 -2 -6 -1 -1 -2 -7 -5 -3  2  4 -1 -8
+X -1 -2 -1 -1 -4 -1 -1 -2 -1 -1 -2 -1 -1 -3 -1 -1 -1 -5 -3 -1 -1 -1 -1 -8
+* -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8  1

data/data/matrix_data/PAM140

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 140 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -1.35, Entropy = 0.820 bits
+#
+# Lowest score = -8, Highest score = 12
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  3 -2  0  0 -2 -1  0  1 -2 -1 -2 -2 -2 -4  1  1  1 -6 -4  0  0  0 -1 -8
+R -2  6 -1 -3 -4  1 -2 -4  1 -2 -4  3 -1 -5 -1 -1 -2  1 -5 -3 -2 -1 -1 -8
+N  0 -1  3  2 -4  0  1  0  2 -2 -3  1 -2 -4 -1  1  0 -4 -2 -2  3  1 -1 -8
+D  0 -3  2  4 -6  1  3  0  0 -3 -5 -1 -4 -6 -2  0 -1 -7 -5 -3  4  3 -1 -8
+C -2 -4 -4 -6  9 -6 -6 -4 -4 -3 -7 -6 -6 -5 -3  0 -3 -8 -1 -2 -5 -6 -4 -8
+Q -1  1  0  1 -6  5  2 -2  3 -3 -2  0 -1 -5  0 -1 -2 -5 -5 -2  1  4 -1 -8
+E  0 -2  1  3 -6  2  4 -1  0 -2 -4 -1 -3 -6 -1 -1 -1 -8 -4 -2  2  4 -1 -8
+G  1 -4  0  0 -4 -2 -1  5 -3 -4 -5 -3 -3 -5 -1  1 -1 -7 -6 -2  0 -1 -1 -8
+H -2  1  2  0 -4  3  0 -3  6 -3 -2 -1 -3 -2 -1 -1 -2 -3  0 -3  1  1 -1 -8
+I -1 -2 -2 -3 -3 -3 -2 -4 -3  5  1 -2  2  0 -3 -2  0 -6 -2  3 -2 -2 -1 -8
+L -2 -4 -3 -5 -7 -2 -4 -5 -2  1  5 -3  3  1 -3 -3 -2 -2 -2  1 -4 -3 -2 -8
+K -2  3  1 -1 -6  0 -1 -3 -1 -2 -3  5  0 -6 -2 -1  0 -4 -5 -3  0  0 -1 -8
+M -2 -1 -2 -4 -6 -1 -3 -3 -3  2  3  0  7 -1 -3 -2 -1 -5 -4  1 -3 -2 -1 -8
+F -4 -5 -4 -6 -5 -5 -6 -5 -2  0  1 -6 -1  7 -5 -3 -4 -1  4 -2 -5 -6 -3 -8
+P  1 -1 -1 -2 -3  0 -1 -1 -1 -3 -3 -2 -3 -5  6  1  0 -6 -6 -2 -2 -1 -1 -8
+S  1 -1  1  0  0 -1 -1  1 -1 -2 -3 -1 -2 -3  1  3  2 -2 -3 -2  0 -1  0 -8
+T  1 -2  0 -1 -3 -2 -1 -1 -2  0 -2  0 -1 -4  0  2  4 -5 -3  0  0 -1 -1 -8
+W -6  1 -4 -7 -8 -5 -8 -7 -3 -6 -2 -4 -5 -1 -6 -2 -5 12 -1 -7 -5 -6 -5 -8
+Y -4 -5 -2 -5 -1 -5 -4 -6  0 -2 -2 -5 -4  4 -6 -3 -3 -1  8 -3 -3 -4 -3 -8
+V  0 -3 -2 -3 -2 -2 -2 -2 -3  3  1 -3  1 -2 -2 -2  0 -7 -3  5 -3 -2 -1 -8
+B  0 -2  3  4 -5  1  2  0  1 -2 -4  0 -3 -5 -2  0  0 -5 -3 -3  3  2 -1 -8
+Z  0 -1  1  3 -6  4  4 -1  1 -2 -3  0 -2 -6 -1 -1 -1 -6 -4 -2  2  4 -1 -8
+X -1 -1 -1 -1 -4 -1 -1 -1 -1 -1 -2 -1 -1 -3 -1  0 -1 -5 -3 -1 -1 -1 -1 -8
+* -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8 -8  1

data/data/matrix_data/PAM150

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 150 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -1.25, Entropy = 0.754 bits
+#
+# Lowest score = -7, Highest score = 12
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  3 -2  0  0 -2 -1  0  1 -2 -1 -2 -2 -1 -4  1  1  1 -6 -3  0  0  0 -1 -7
+R -2  6 -1 -2 -4  1 -2 -3  1 -2 -3  3 -1 -4 -1 -1 -2  1 -4 -3 -2  0 -1 -7
+N  0 -1  3  2 -4  0  1  0  2 -2 -3  1 -2 -4 -1  1  0 -4 -2 -2  3  1 -1 -7
+D  0 -2  2  4 -6  1  3  0  0 -3 -5 -1 -3 -6 -2  0 -1 -7 -4 -3  3  2 -1 -7
+C -2 -4 -4 -6  9 -6 -6 -4 -3 -2 -6 -6 -5 -5 -3  0 -3 -7  0 -2 -5 -6 -3 -7
+Q -1  1  0  1 -6  5  2 -2  3 -3 -2  0 -1 -5  0 -1 -1 -5 -4 -2  1  4 -1 -7
+E  0 -2  1  3 -6  2  4 -1  0 -2 -4 -1 -2 -6 -1 -1 -1 -7 -4 -2  2  4 -1 -7
+G  1 -3  0  0 -4 -2 -1  4 -3 -3 -4 -2 -3 -5 -1  1 -1 -7 -5 -2  0 -1 -1 -7
+H -2  1  2  0 -3  3  0 -3  6 -3 -2 -1 -3 -2 -1 -1 -2 -3  0 -3  1  1 -1 -7
+I -1 -2 -2 -3 -2 -3 -2 -3 -3  5  1 -2  2  0 -3 -2  0 -5 -2  3 -2 -2 -1 -7
+L -2 -3 -3 -5 -6 -2 -4 -4 -2  1  5 -3  3  1 -3 -3 -2 -2 -2  1 -4 -3 -2 -7
+K -2  3  1 -1 -6  0 -1 -2 -1 -2 -3  4  0 -6 -2 -1  0 -4 -4 -3  0  0 -1 -7
+M -1 -1 -2 -3 -5 -1 -2 -3 -3  2  3  0  7 -1 -3 -2 -1 -5 -3  1 -3 -2 -1 -7
+F -4 -4 -4 -6 -5 -5 -6 -5 -2  0  1 -6 -1  7 -5 -3 -3 -1  5 -2 -5 -5 -3 -7
+P  1 -1 -1 -2 -3  0 -1 -1 -1 -3 -3 -2 -3 -5  6  1  0 -6 -5 -2 -2 -1 -1 -7
+S  1 -1  1  0  0 -1 -1  1 -1 -2 -3 -1 -2 -3  1  2  1 -2 -3 -1  0 -1  0 -7
+T  1 -2  0 -1 -3 -1 -1 -1 -2  0 -2  0 -1 -3  0  1  4 -5 -3  0  0 -1 -1 -7
+W -6  1 -4 -7 -7 -5 -7 -7 -3 -5 -2 -4 -5 -1 -6 -2 -5 12 -1 -6 -5 -6 -4 -7
+Y -3 -4 -2 -4  0 -4 -4 -5  0 -2 -2 -4 -3  5 -5 -3 -3 -1  8 -3 -3 -4 -3 -7
+V  0 -3 -2 -3 -2 -2 -2 -2 -3  3  1 -3  1 -2 -2 -1  0 -6 -3  4 -2 -2 -1 -7
+B  0 -2  3  3 -5  1  2  0  1 -2 -4  0 -3 -5 -2  0  0 -5 -3 -2  3  2 -1 -7
+Z  0  0  1  2 -6  4  4 -1  1 -2 -3  0 -2 -5 -1 -1 -1 -6 -4 -2  2  4 -1 -7
+X -1 -1 -1 -1 -3 -1 -1 -1 -1 -1 -2 -1 -1 -3 -1  0 -1 -4 -3 -1 -1 -1 -1 -7
+* -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7  1

data/data/matrix_data/PAM160

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 160 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -1.14, Entropy = 0.694 bits
+#
+# Lowest score = -7, Highest score = 12
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  2 -2  0  0 -2 -1  0  1 -2 -1 -2 -2 -1 -3  1  1  1 -5 -3  0  0  0  0 -7
+R -2  6 -1 -2 -3  1 -2 -3  1 -2 -3  3 -1 -4 -1 -1 -1  1 -4 -3 -1  0 -1 -7
+N  0 -1  3  2 -4  0  1  0  2 -2 -3  1 -2 -3 -1  1  0 -4 -2 -2  2  1  0 -7
+D  0 -2  2  4 -5  1  3  0  0 -3 -4  0 -3 -6 -2  0 -1 -6 -4 -3  3  2 -1 -7
+C -2 -3 -4 -5  9 -5 -5 -3 -3 -2 -6 -5 -5 -5 -3  0 -2 -7  0 -2 -4 -5 -3 -7
+Q -1  1  0  1 -5  5  2 -2  2 -2 -2  0 -1 -5  0 -1 -1 -5 -4 -2  1  3 -1 -7
+E  0 -2  1  3 -5  2  4  0  0 -2 -3 -1 -2 -5 -1  0 -1 -7 -4 -2  2  3 -1 -7
+G  1 -3  0  0 -3 -2  0  4 -3 -3 -4 -2 -3 -4 -1  1 -1 -7 -5 -2  0 -1 -1 -7
+H -2  1  2  0 -3  2  0 -3  6 -3 -2 -1 -3 -2 -1 -1 -2 -3  0 -2  1  1 -1 -7
+I -1 -2 -2 -3 -2 -2 -2 -3 -3  5  2 -2  2  0 -2 -2  0 -5 -2  3 -2 -2 -1 -7
+L -2 -3 -3 -4 -6 -2 -3 -4 -2  2  5 -3  3  1 -3 -3 -2 -2 -2  1 -4 -3 -2 -7
+K -2  3  1  0 -5  0 -1 -2 -1 -2 -3  4  0 -5 -2 -1  0 -4 -4 -3  0  0 -1 -7
+M -1 -1 -2 -3 -5 -1 -2 -3 -3  2  3  0  7  0 -2 -2 -1 -4 -3  1 -3 -2 -1 -7
+F -3 -4 -3 -6 -5 -5 -5 -4 -2  0  1 -5  0  7 -4 -3 -3 -1  5 -2 -4 -5 -3 -7
+P  1 -1 -1 -2 -3  0 -1 -1 -1 -2 -3 -2 -2 -4  5  1  0 -5 -5 -2 -1 -1 -1 -7
+S  1 -1  1  0  0 -1  0  1 -1 -2 -3 -1 -2 -3  1  2  1 -2 -3 -1  0 -1  0 -7
+T  1 -1  0 -1 -2 -1 -1 -1 -2  0 -2  0 -1 -3  0  1  3 -5 -3  0  0 -1  0 -7
+W -5  1 -4 -6 -7 -5 -7 -7 -3 -5 -2 -4 -4 -1 -5 -2 -5 12 -1 -6 -5 -6 -4 -7
+Y -3 -4 -2 -4  0 -4 -4 -5  0 -2 -2 -4 -3  5 -5 -3 -3 -1  8 -3 -3 -4 -3 -7
+V  0 -3 -2 -3 -2 -2 -2 -2 -2  3  1 -3  1 -2 -2 -1  0 -6 -3  4 -2 -2 -1 -7
+B  0 -1  2  3 -4  1  2  0  1 -2 -4  0 -3 -4 -1  0  0 -5 -3 -2  3  2 -1 -7
+Z  0  0  1  2 -5  3  3 -1  1 -2 -3  0 -2 -5 -1 -1 -1 -6 -4 -2  2  3 -1 -7
+X  0 -1  0 -1 -3 -1 -1 -1 -1 -1 -2 -1 -1 -3 -1  0  0 -4 -3 -1 -1 -1 -1 -7
+* -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7 -7  1

data/data/matrix_data/PAM170

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 170 substitution matrix, scale = ln(2)/3 = 0.231049
+#
+# Expected score = -1.57, Entropy = 0.640 bits
+#
+# Lowest score = -10, Highest score = 18
+#
+    A   R   N   D   C   Q   E   G   H   I   L   K   M   F   P   S   T   W   Y   V   B   Z   X   *
+A   3  -3   0   0  -3  -1   0   1  -3  -1  -3  -2  -2  -5   1   2   2  -8  -5   0   0   0  -1 -10
+R  -3   8  -1  -3  -5   1  -2  -4   2  -3  -4   4  -1  -6  -1  -1  -2   2  -6  -4  -2   0  -2 -10
+N   0  -1   4   3  -5   0   2   0   2  -3  -4   1  -3  -5  -1   1   0  -5  -3  -3   3   1  -1 -10
+D   0  -3   3   6  -7   2   5   0   0  -4  -6  -1  -4  -8  -2   0  -1  -9  -6  -4   5   4  -1 -10
+C  -3  -5  -5  -7  13  -8  -8  -5  -5  -3  -9  -8  -7  -6  -4   0  -3 -10   0  -3  -6  -8  -4 -10
+Q  -1   1   0   2  -8   6   3  -2   4  -3  -2   0  -1  -7   0  -1  -2  -7  -6  -3   1   5  -1 -10
+E   0  -2   2   5  -8   3   6   0   0  -3  -5  -1  -3  -8  -1  -1  -1 -10  -6  -3   3   5  -1 -10
+G   1  -4   0   0  -5  -2   0   6  -4  -4  -6  -3  -4  -6  -2   1  -1  -9  -7  -2   0  -1  -2 -10
+H  -3   2   2   0  -5   4   0  -4   9  -4  -3  -1  -4  -3  -1  -2  -2  -4   0  -3   1   2  -1 -10
+I  -1  -3  -3  -4  -3  -3  -3  -4  -4   7   2  -3   2   1  -3  -2   0  -7  -2   5  -3  -3  -1 -10
+L  -3  -4  -4  -6  -9  -2  -5  -6  -3   2   7  -4   4   1  -4  -4  -3  -3  -2   2  -5  -4  -2 -10
+K  -2   4   1  -1  -8   0  -1  -3  -1  -3  -4   6   1  -8  -2  -1   0  -5  -6  -4   0   0  -2 -10
+M  -2  -1  -3  -4  -7  -1  -3  -4  -4   2   4   1  10   0  -3  -2  -1  -6  -4   2  -4  -2  -1 -10
+F  -5  -6  -5  -8  -6  -7  -8  -6  -3   1   1  -8   0  10  -6  -4  -5  -1   7  -2  -6  -7  -4 -10
+P   1  -1  -1  -2  -4   0  -1  -2  -1  -3  -4  -2  -3  -6   8   1   0  -8  -7  -2  -2  -1  -1 -10
+S   2  -1   1   0   0  -1  -1   1  -2  -2  -4  -1  -2  -4   1   3   2  -3  -4  -2   1  -1   0 -10
+T   2  -2   0  -1  -3  -2  -1  -1  -2   0  -3   0  -1  -5   0   2   5  -7  -4   0   0  -1  -1 -10
+W  -8   2  -5  -9 -10  -7 -10  -9  -4  -7  -3  -5  -6  -1  -8  -3  -7  18  -1  -9  -7  -8  -6 -10
+Y  -5  -6  -3  -6   0  -6  -6  -7   0  -2  -2  -6  -4   7  -7  -4  -4  -1  12  -4  -4  -6  -4 -10
+V   0  -4  -3  -4  -3  -3  -3  -2  -3   5   2  -4   2  -2  -2  -2   0  -9  -4   6  -3  -3  -1 -10
+B   0  -2   3   5  -6   1   3   0   1  -3  -5   0  -4  -6  -2   1   0  -7  -4  -3   4   3  -1 -10
+Z   0   0   1   4  -8   5   5  -1   2  -3  -4   0  -2  -7  -1  -1  -1  -8  -6  -3   3   5  -1 -10
+X  -1  -2  -1  -1  -4  -1  -1  -2  -1  -1  -2  -2  -1  -4  -1   0  -1  -6  -4  -1  -1  -1  -2 -10
+* -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10   1

data/data/matrix_data/PAM180

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 180 substitution matrix, scale = ln(2)/3 = 0.231049
+#
+# Expected score = -1.51, Entropy = 0.591 bits
+#
+# Lowest score = -10, Highest score = 18
+#
+    A   R   N   D   C   Q   E   G   H   I   L   K   M   F   P   S   T   W   Y   V   B   Z   X   *
+A   3  -3   0   0  -3  -1   0   1  -2  -1  -3  -2  -2  -5   1   1   2  -8  -5   0   0   0  -1 -10
+R  -3   8  -1  -3  -5   1  -2  -4   2  -3  -4   4  -1  -6  -1  -1  -2   2  -6  -4  -2   0  -2 -10
+N   0  -1   4   3  -5   0   2   0   2  -3  -4   1  -3  -5  -1   1   0  -5  -2  -3   3   1  -1 -10
+D   0  -3   3   5  -7   2   4   0   0  -3  -6   0  -4  -8  -2   0  -1  -9  -6  -3   4   3  -1 -10
+C  -3  -5  -5  -7  13  -7  -7  -5  -4  -3  -8  -7  -7  -6  -4   0  -3 -10   0  -3  -6  -7  -4 -10
+Q  -1   1   0   2  -7   6   3  -2   4  -3  -2   0  -1  -6   0  -1  -2  -6  -6  -3   1   5  -1 -10
+E   0  -2   2   4  -7   3   5   0   0  -3  -5  -1  -3  -7  -1  -1  -1  -9  -6  -3   3   5  -1 -10
+G   1  -4   0   0  -5  -2   0   6  -3  -4  -6  -3  -4  -6  -1   1  -1  -9  -7  -2   0  -1  -2 -10
+H  -2   2   2   0  -4   4   0  -3   8  -4  -3  -1  -3  -3  -1  -2  -2  -4   0  -3   1   2  -1 -10
+I  -1  -3  -3  -3  -3  -3  -3  -4  -4   6   2  -3   2   1  -3  -2   0  -7  -2   5  -3  -3  -1 -10
+L  -3  -4  -4  -6  -8  -2  -5  -6  -3   2   7  -4   4   1  -4  -4  -3  -3  -2   2  -5  -3  -2 -10
+K  -2   4   1   0  -7   0  -1  -3  -1  -3  -4   6   1  -7  -2  -1   0  -5  -6  -4   0   0  -1 -10
+M  -2  -1  -3  -4  -7  -1  -3  -4  -3   2   4   1   9   0  -3  -2  -1  -6  -4   2  -3  -2  -1 -10
+F  -5  -6  -5  -8  -6  -6  -7  -6  -3   1   1  -7   0  10  -6  -4  -4   0   7  -2  -6  -7  -3 -10
+P   1  -1  -1  -2  -4   0  -1  -1  -1  -3  -4  -2  -3  -6   8   1   0  -7  -7  -2  -2  -1  -1 -10
+S   1  -1   1   0   0  -1  -1   1  -2  -2  -4  -1  -2  -4   1   3   2  -3  -4  -2   1  -1   0 -10
+T   2  -2   0  -1  -3  -2  -1  -1  -2   0  -3   0  -1  -4   0   2   4  -7  -4   0   0  -1  -1 -10
+W  -8   2  -5  -9 -10  -6  -9  -9  -4  -7  -3  -5  -6   0  -7  -3  -7  18  -1  -8  -7  -8  -6 -10
+Y  -5  -6  -2  -6   0  -6  -6  -7   0  -2  -2  -6  -4   7  -7  -4  -4  -1  11  -4  -4  -6  -3 -10
+V   0  -4  -3  -3  -3  -3  -3  -2  -3   5   2  -4   2  -2  -2  -2   0  -8  -4   6  -3  -3  -1 -10
+B   0  -2   3   4  -6   1   3   0   1  -3  -5   0  -3  -6  -2   1   0  -7  -4  -3   4   3  -1 -10
+Z   0   0   1   3  -7   5   5  -1   2  -3  -3   0  -2  -7  -1  -1  -1  -8  -6  -3   3   5  -1 -10
+X  -1  -2  -1  -1  -4  -1  -1  -2  -1  -1  -2  -1  -1  -3  -1   0  -1  -6  -3  -1  -1  -1  -1 -10
+* -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10 -10   1

data/data/matrix_data/PAM190

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 190 substitution matrix, scale = ln(2)/3 = 0.231049
+#
+# Expected score = -1.35, Entropy = 0.547 bits
+#
+# Lowest score = -9, Highest score = 18
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  3 -2  0  0 -3 -1  0  1 -2 -1 -3 -2 -2 -5  1  1  2 -7 -4  0  0  0  0 -9
+R -2  8 -1 -2 -5  1 -2 -4  2 -3 -4  4 -1 -6  0 -1 -2  2 -5 -3 -1  0 -1 -9
+N  0 -1  3  3 -5  1  2  0  2 -2 -4  1 -3 -4 -1  1  0 -5 -2 -3  3  1 -1 -9
+D  0 -2  3  5 -7  2  4  0  0 -3 -5  0 -4 -7 -2  0 -1 -8 -5 -3  4  3 -1 -9
+C -3 -5 -5 -7 13 -7 -7 -4 -4 -3 -8 -7 -7 -6 -4  0 -3 -9  0 -3 -6 -7 -4 -9
+Q -1  1  1  2 -7  6  3 -2  3 -3 -2  1 -1 -6  0 -1 -1 -6 -5 -3  1  4 -1 -9
+E  0 -2  2  4 -7  3  5  0  0 -3 -4 -1 -3 -7 -1  0 -1 -9 -5 -3  3  4 -1 -9
+G  1 -4  0  0 -4 -2  0  6 -3 -4 -5 -3 -4 -6 -1  1 -1 -9 -7 -2  0 -1 -1 -9
+H -2  2  2  0 -4  3  0 -3  8 -3 -3 -1 -3 -2 -1 -1 -2 -3  0 -3  1  2 -1 -9
+I -1 -3 -2 -3 -3 -3 -3 -4 -3  6  2 -3  2  1 -3 -2  0 -7 -2  4 -3 -3 -1 -9
+L -3 -4 -4 -5 -8 -2 -4 -5 -3  2  7 -4  4  2 -3 -4 -2 -3 -2  2 -5 -3 -2 -9
+K -2  4  1  0 -7  1 -1 -3 -1 -3 -4  6  1 -7 -2  0  0 -5 -6 -3  0  0 -1 -9
+M -2 -1 -3 -4 -7 -1 -3 -4 -3  2  4  1  9  0 -3 -2 -1 -6 -4  2 -3 -2 -1 -9
+F -5 -6 -4 -7 -6 -6 -7 -6 -2  1  2 -7  0 10 -6 -4 -4  0  7 -2 -6 -7 -3 -9
+P  1  0 -1 -2 -4  0 -1 -1 -1 -3 -3 -2 -3 -6  7  1  0 -7 -6 -2 -1 -1 -1 -9
+S  1 -1  1  0  0 -1  0  1 -1 -2 -4  0 -2 -4  1  3  2 -3 -4 -2  1 -1  0 -9
+T  2 -2  0 -1 -3 -1 -1 -1 -2  0 -2  0 -1 -4  0  2  4 -6 -3  0  0 -1  0 -9
+W -7  2 -5 -8 -9 -6 -9 -9 -3 -7 -3 -5 -6  0 -7 -3 -6 18 -1 -8 -6 -7 -5 -9
+Y -4 -5 -2 -5  0 -5 -5 -7  0 -2 -2 -6 -4  7 -6 -4 -3 -1 11 -3 -4 -5 -3 -9
+V  0 -3 -3 -3 -3 -3 -3 -2 -3  4  2 -3  2 -2 -2 -2  0 -8 -3  6 -3 -3 -1 -9
+B  0 -1  3  4 -6  1  3  0  1 -3 -5  0 -3 -6 -1  1  0 -6 -4 -3  4  2 -1 -9
+Z  0  0  1  3 -7  4  4 -1  2 -3 -3  0 -2 -7 -1 -1 -1 -7 -5 -3  2  4 -1 -9
+X  0 -1 -1 -1 -4 -1 -1 -1 -1 -1 -2 -1 -1 -3 -1  0  0 -5 -3 -1 -1 -1 -1 -9
+* -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9  1

data/data/matrix_data/PAM20

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 20 substitution matrix, scale = ln(2)/2 = 0.346574
+#
+# Expected score = -6.18, Entropy = 2.95 bits
+#
+# Lowest score = -19, Highest score = 13
+#
+    A   R   N   D   C   Q   E   G   H   I   L   K   M   F   P   S   T   W   Y   V   B   Z   X   *
+A   6  -8  -5  -4  -8  -5  -3  -3  -8  -6  -7  -8  -6  -9  -2  -1  -1 -16  -9  -3  -5  -4  -4 -19
+R  -8   9  -7 -12  -9  -2 -11 -11  -3  -6 -10  -1  -5 -10  -5  -4  -8  -3 -11  -9  -9  -5  -7 -19
+N  -5  -7   8   1 -13  -5  -3  -4  -1  -6  -8  -2 -11 -10  -7  -1  -3  -9  -5  -9   6  -4  -4 -19
+D  -4 -12   1   8 -16  -4   2  -4  -5  -9 -15  -6 -13 -17  -9  -5  -6 -17 -13  -9   6   0  -7 -19
+C  -8  -9 -13 -16  10 -16 -16 -11  -8  -7 -17 -16 -16 -15  -9  -4  -9 -18  -5  -7 -14 -16 -11 -19
+Q  -5  -2  -5  -4 -16   9   0  -8   0  -9  -6  -4  -5 -15  -4  -6  -7 -15 -14  -8  -4   7  -6 -19
+E  -3 -11  -3   2 -16   0   8  -5  -6  -6 -10  -5  -8 -16  -7  -5  -7 -19  -9  -8   0   6  -6 -19
+G  -3 -11  -4  -4 -11  -8  -5   7 -10 -13 -12  -8 -10 -10  -7  -3  -7 -17 -16  -7  -4  -6  -6 -19
+H  -8  -3  -1  -5  -8   0  -6 -10   9 -11  -7  -8 -13  -7  -5  -7  -8  -8  -4  -7  -2  -2  -6 -19
+I  -6  -6  -6  -9  -7  -9  -6 -13 -11   9  -2  -7  -2  -3 -10  -8  -3 -16  -7   1  -7  -7  -6 -19
+L  -7 -10  -8 -15 -17  -6 -10 -12  -7  -2   7  -9   0  -4  -8  -9  -8  -7  -8  -3 -10  -8  -7 -19
+K  -8  -1  -2  -6 -16  -4  -5  -8  -8  -7  -9   7  -3 -16  -8  -5  -4 -14 -10 -10  -3  -5  -6 -19
+M  -6  -5 -11 -13 -16  -5  -8 -10 -13  -2   0  -3  11  -5  -9  -6  -5 -15 -13  -2 -12  -6  -6 -19
+F  -9 -10 -10 -17 -15 -15 -16 -10  -7  -3  -4 -16  -5   9 -11  -7 -10  -6   1  -9 -12 -16  -9 -19
+P  -2  -5  -7  -9  -9  -4  -7  -7  -5 -10  -8  -8  -9 -11   8  -3  -5 -16 -16  -7  -8  -5  -6 -19
+S  -1  -4  -1  -5  -4  -6  -5  -3  -7  -8  -9  -5  -6  -7  -3   7   0  -6  -8  -8  -2  -6  -4 -19
+T  -1  -8  -3  -6  -9  -7  -7  -7  -8  -3  -8  -4  -5 -10  -5   0   7 -15  -7  -4  -4  -7  -5 -19
+W -16  -3  -9 -17 -18 -15 -19 -17  -8 -16  -7 -14 -15  -6 -16  -6 -15  13  -6 -18 -11 -17 -13 -19
+Y  -9 -11  -5 -13  -5 -14  -9 -16  -4  -7  -8 -10 -13   1 -16  -8  -7  -6  10  -8  -7 -11  -9 -19
+V  -3  -9  -9  -9  -7  -8  -8  -7  -7   1  -3 -10  -2  -9  -7  -8  -4 -18  -8   7  -9  -8  -6 -19
+B  -5  -9   6   6 -14  -4   0  -4  -2  -7 -10  -3 -12 -12  -8  -2  -4 -11  -7  -9   6  -1  -6 -19
+Z  -4  -5  -4   0 -16   7   6  -6  -2  -7  -8  -5  -6 -16  -5  -6  -7 -17 -11  -8  -1   6  -6 -19
+X  -4  -7  -4  -7 -11  -6  -6  -6  -6  -6  -7  -6  -6  -9  -6  -4  -5 -13  -9  -6  -6  -6  -6 -19
+* -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19 -19   1

data/data/matrix_data/PAM200

@@ -0,0 +1,34 @@
+#
+# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
+#
+# PAM 200 substitution matrix, scale = ln(2)/3 = 0.231049
+#
+# Expected score = -1.23, Entropy = 0.507 bits
+#
+# Lowest score = -9, Highest score = 18
+#
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  3 -2  0  0 -3 -1  0  1 -2 -1 -2 -2 -2 -4  1  1  1 -7 -4  0  0  0  0 -9
+R -2  7  0 -2 -4  1 -2 -4  2 -2 -4  4 -1 -5  0 -1 -1  2 -5 -3 -1  0 -1 -9
+N  0  0  3  3 -5  1  2  0  2 -2 -4  1 -2 -4 -1  1  0 -5 -2 -2  3  1  0 -9
+D  0 -2  3  5 -6  2  4  0  0 -3 -5  0 -4 -7 -2  0  0 -8 -5 -3  4  3 -1 -9
+C -3 -4 -5 -6 12 -7 -7 -4 -4 -3 -7 -7 -6 -6 -4  0 -3 -9  0 -2 -5 -7 -4 -9
+Q -1  1  1  2 -7  5  3 -2  3 -3 -2  1 -1 -6  0 -1 -1 -6 -5 -3  1  4 -1 -9
+E  0 -2  2  4 -7  3  5  0  0 -3 -4  0 -3 -7 -1  0 -1 -9 -5 -2  3  4 -1 -9
+G  1 -4  0  0 -4 -2  0  6 -3 -3 -5 -2 -4 -6 -1  1  0 -8 -6 -2  0 -1 -1 -9
+H -2  2  2  0 -4  3  0 -3  8 -3 -3 -1 -3 -2 -1 -1 -2 -3  0 -3  1  2 -1 -9
+I -1 -2 -2 -3 -3 -3 -3 -3 -3  6  2 -2  2  1 -3 -2  0 -6 -2  4 -3 -3 -1 -9
+L -2 -4 -4 -5 -7 -2 -4 -5 -3  2  7 -4  4  2 -3 -4 -2 -2 -2  2 -4 -3 -2 -9
+K -2  4  1  0 -7  1  0 -2 -1 -2 -4  6  1 -7 -2  0  0 -4 -5 -3  0  0 -1 -9
+M -2 -1 -2 -4 -6 -1 -3 -4 -3  2  4  1  8  0 -3 -2 -1 -5 -3  2 -3 -2 -1 -9
+F -4 -5 -4 -7 -6 -6 -7 -6 -2  1  2 -7  0 10 -6 -4 -4  0  7 -2 -6 -6 -3 -9
+P  1  0 -1 -2 -4  0 -1 -1 -1 -3 -3 -2 -3 -6  7  1  0 -7 -6 -2 -1 -1 -1 -9
+S  1 -1  1  0  0 -1  0  1 -1 -2 -4  0 -2 -4  1  2  2 -3 -3 -1  1 -1  0 -9
+T  1 -1  0  0 -3 -1 -1  0 -2  0 -2  0 -1 -4  0  2  4 -6 -3  0  0 -1  0 -9
+W -7  2 -5 -8 -9 -6 -9 -8 -3 -6 -2 -4 -5  0 -7 -3 -6 18 -1 -8 -6 -7 -5 -9
+Y -4 -5 -2 -5  0 -5 -5 -6  0 -2 -2 -5 -3  7 -6 -3 -3 -1 11 -3 -4 -5 -3 -9
+V  0 -3 -2 -3 -2 -3 -2 -2 -3  4  2 -3  2 -2 -2 -1  0 -8 -3  5 -3 -2 -1 -9
+B  0 -1  3  4 -5  1  3  0  1 -3 -4  0 -3 -6 -1  1  0 -6 -4 -3  3  2 -1 -9
+Z  0  0  1  3 -7  4  4 -1  2 -3 -3  0 -2 -6 -1 -1 -1 -7 -5 -2  2  4 -1 -9
+X  0 -1  0 -1 -4 -1 -1 -1 -1 -1 -2 -1 -1 -3 -1  0  0 -5 -3 -1 -1 -1 -1 -9
+* -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9 -9  1