--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/corebio/data/blosum35.mat	Thu Oct 27 12:09:09 2011 -0400
@@ -0,0 +1,31 @@
+#  Matrix made by matblas from blosum35.iij
+#  * column uses minimum score
+#  BLOSUM Clustered Scoring Matrix in 1/4 Bit Units
+#  Blocks Database = /data/blocks_5.0/blocks.dat
+#  Cluster Percentage: >= 35
+#  Entropy =   0.2111, Expected =  -0.1550
+   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 -1 -1 -1 -2  0 -1  0 -2 -1 -2  0  0 -2 -2  1  0 -2 -1  0 -1 -1  0 -5 
+R -1  8 -1 -1 -3  2 -1 -2 -1 -3 -2  2  0 -1 -2 -1 -2  0  0 -1 -1  0 -1 -5 
+N -1 -1  7  1 -1  1 -1  1  1 -1 -2  0 -1 -1 -2  0  0 -2 -2 -2  4  0  0 -5 
+D -1 -1  1  8 -3 -1  2 -2  0 -3 -2 -1 -3 -3 -1 -1 -1 -3 -2 -2  5  1 -1 -5 
+C -2 -3 -1 -3 15 -3 -1 -3 -4 -4 -2 -2 -4 -4 -4 -3 -1 -5 -5 -2 -2 -2 -2 -5 
+Q  0  2  1 -1 -3  7  2 -2 -1 -2 -2  0 -1 -4  0  0  0 -1  0 -3  0  4 -1 -5 
+E -1 -1 -1  2 -1  2  6 -2 -1 -3 -1  1 -2 -3  0  0 -1 -1 -1 -2  0  5 -1 -5 
+G  0 -2  1 -2 -3 -2 -2  7 -2 -3 -3 -1 -1 -3 -2  1 -2 -1 -2 -3  0 -2 -1 -5 
+H -2 -1  1  0 -4 -1 -1 -2 12 -3 -2 -2  1 -3 -1 -1 -2 -4  0 -4  0 -1 -1 -5 
+I -1 -3 -1 -3 -4 -2 -3 -3 -3  5  2 -2  1  1 -1 -2 -1 -1  0  4 -2 -3  0 -5 
+L -2 -2 -2 -2 -2 -2 -1 -3 -2  2  5 -2  3  2 -3 -2  0  0  0  2 -2 -2  0 -5 
+K  0  2  0 -1 -2  0  1 -1 -2 -2 -2  5  0 -1  0  0  0  0 -1 -2  0  1  0 -5 
+M  0  0 -1 -3 -4 -1 -2 -1  1  1  3  0  6  0 -3 -1  0  1  0  1 -2 -2  0 -5 
+F -2 -1 -1 -3 -4 -4 -3 -3 -3  1  2 -1  0  8 -4 -1 -1  1  3  1 -2 -3 -1 -5 
+P -2 -2 -2 -1 -4  0  0 -2 -1 -1 -3  0 -3 -4 10 -2  0 -4 -3 -3 -1  0 -1 -5 
+S  1 -1  0 -1 -3  0  0  1 -1 -2 -2  0 -1 -1 -2  4  2 -2 -1 -1  0  0  0 -5 
+T  0 -2  0 -1 -1  0 -1 -2 -2 -1  0  0  0 -1  0  2  5 -2 -2  1 -1 -1  0 -5 
+W -2  0 -2 -3 -5 -1 -1 -1 -4 -1  0  0  1  1 -4 -2 -2 16  3 -2 -3 -1 -1 -5 
+Y -1  0 -2 -2 -5  0 -1 -2  0  0  0 -1  0  3 -3 -1 -2  3  8  0 -2 -1 -1 -5 
+V  0 -1 -2 -2 -2 -3 -2 -3 -4  4  2 -2  1  1 -3 -1  1 -2  0  5 -2 -2  0 -5 
+B -1 -1  4  5 -2  0  0  0  0 -2 -2  0 -2 -2 -1  0 -1 -3 -2 -2  5  0 -1 -5 
+Z -1  0  0  1 -2  4  5 -2 -1 -3 -2  1 -2 -3  0  0 -1 -1 -1 -2  0  4  0 -5 
+X  0 -1  0 -1 -2 -1 -1 -1 -1  0  0  0  0 -1 -1  0  0 -1 -1  0 -1  0 -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