X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=resources%2FscoreModel%2Fblosum80.scm;fp=resources%2FscoreModel%2Fblosum80.scm;h=8de04b7db2f715acfe08ff088a082a7b83f01782;hb=b1ebcb36cb6b71827fa3b27c033cc022508959c6;hp=0000000000000000000000000000000000000000;hpb=45e015aabe8f35a4a13be26e7630641ef8c94fbb;p=jalview.git

diff --git a/resources/scoreModel/blosum80.scm b/resources/scoreModel/blosum80.scm
new file mode 100644
index 0000000..8de04b7
--- /dev/null
+++ b/resources/scoreModel/blosum80.scm
@@ -0,0 +1,46 @@
+ScoreMatrix BLOSUM80
+ARNDCQEGHILKMFPSTWYVBJZX*
+#
+# Source: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/C_DOC/lxr/source/data/BLOSUM80
+#
+# ** THIS IS A SUGGESTED FILE, NOT VALIDATED **
+# Please read https://www.biostars.org/p/190004/ for possible alternatives!
+#
+# The first line declares a ScoreMatrix with the name BLOSUM80
+# The second line gives the symbols for which scores are held in the matrix
+# These may include a space (but not as the first or last character)
+#
+# Scores are not symbol case sensitive, unless column(s) are provided for lower case characters
+# The 'guide symbol' at the start of each row of score values is optional
+#
+# Comment header line with symbols is provided as a guide
+# Values may be integer or floating point, delimited by tab, space, comma or combinations
+#
+#	A	R	N	D	C	Q	E	G	H	I	L	K	M	F	P	S	T	W	Y	V	B	J	Z	X	 *
+A	5	-2	-2	-2	-1	-1	-1	0	-2	-2	-2	-1	-1	-3	-1	1	0	-3	-2	0	-2	-2	-1	-1	-6
+R	-2	6	-1	-2	-4	1	-1	-3	0	-3	-3	2	-2	-4	-2	-1	-1	-4	-3	-3	-1	-3	0	-1	-6
+N	-2	-1	6	1	-3	0	-1	-1	0	-4	-4	0	-3	-4	-3	0	0	-4	-3	-4	5	-4	0	-1	-6
+D	-2	-2	1	6	-4	-1	1	-2	-2	-4	-5	-1	-4	-4	-2	-1	-1	-6	-4	-4	5	-5	1	-1	-6
+C	-1	-4	-3	-4	9	-4	-5	-4	-4	-2	-2	-4	-2	-3	-4	-2	-1	-3	-3	-1	-4	-2	-4	-1	-6
+Q	-1	1	0	-1	-4	6	2	-2	1	-3	-3	1	0	-4	-2	0	-1	-3	-2	-3	0	-3	4	-1	-6
+E	-1	-1	-1	1	-5	2	6	-3	0	-4	-4	1	-2	-4	-2	0	-1	-4	-3	-3	1	-4	5	-1	-6
+G	0	-3	-1	-2	-4	-2	-3	6	-3	-5	-4	-2	-4	-4	-3	-1	-2	-4	-4	-4	-1	-5	-3	-1	-6
+H	-2	0	0	-2	-4	1	0	-3	8	-4	-3	-1	-2	-2	-3	-1	-2	-3	2	-4	-1	-4	0	-1	-6
+I	-2	-3	-4	-4	-2	-3	-4	-5	-4	5	1	-3	1	-1	-4	-3	-1	-3	-2	3	-4	3	-4	-1	-6
+L	-2	-3	-4	-5	-2	-3	-4	-4	-3	1	4	-3	2	0	-3	-3	-2	-2	-2	1	-4	3	-3	-1	-6
+K	-1	2	0	-1	-4	1	1	-2	-1	-3	-3	5	-2	-4	-1	-1	-1	-4	-3	-3	-1	-3	1	-1	-6
+M	-1	-2	-3	-4	-2	0	-2	-4	-2	1	2	-2	6	0	-3	-2	-1	-2	-2	1	-3	2	-1	-1	-6
+F	-3	-4	-4	-4	-3	-4	-4	-4	-2	-1	0	-4	0	6	-4	-3	-2	0	3	-1	-4	0	-4	-1	-6
+P	-1	-2	-3	-2	-4	-2	-2	-3	-3	-4	-3	-1	-3	-4	8	-1	-2	-5	-4	-3	-2	-4	-2	-1	-6
+S	1	-1	0	-1	-2	0	0	-1	-1	-3	-3	-1	-2	-3	-1	5	1	-4	-2	-2	0	-3	0	-1	-6
+T	0	-1	0	-1	-1	-1	-1	-2	-2	-1	-2	-1	-1	-2	-2	1	5	-4	-2	0	-1	-1	-1	-1	-6
+W	-3	-4	-4	-6	-3	-3	-4	-4	-3	-3	-2	-4	-2	0	-5	-4	-4	11	2	-3	-5	-3	-3	-1	-6
+Y	-2	-3	-3	-4	-3	-2	-3	-4	2	-2	-2	-3	-2	3	-4	-2	-2	2	7	-2	-3	-2	-3	-1	-6
+V	0	-3	-4	-4	-1	-3	-3	-4	-4	3	1	-3	1	-1	-3	-2	0	-3	-2	4	-4	2	-3	-1	-6
+B	-2	-1	5	5	-4	0	1	-1	-1	-4	-4	-1	-3	-4	-2	0	-1	-5	-3	-4	5	-4	0	-1	-6
+J	-2	-3	-4	-5	-2	-3	-4	-5	-4	3	3	-3	2	0	-4	-3	-1	-3	-2	2	-4	3	-3	-1	-6
+Z	-1	0	0	1	-4	4	5	-3	0	-4	-3	1	-1	-4	-2	0	-1	-3	-3	-3	0	-3	5	-1	-6
+X	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-1	-6
+*	-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
+#
+#	A	R	N	D	C	Q	E	G	H	I	L	K	M	F	P	S	T	W	Y	V	B	J	Z	X	*