X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=resources%2FscoreModel%2Fsecondarystructure.scm;fp=resources%2FscoreModel%2Fsecondarystructure.scm;h=f56986fffb9d6220d0f8a723bcb1894130923ee3;hb=37c507c5ed74c4b1564556a19d0bc651f8dccc2d;hp=0000000000000000000000000000000000000000;hpb=a3fac343a7a385f8ec33a739ada884ebd0e170d8;p=jalview.git

diff --git a/resources/scoreModel/secondarystructure.scm b/resources/scoreModel/secondarystructure.scm
new file mode 100644
index 0000000..f56986f
--- /dev/null
+++ b/resources/scoreModel/secondarystructure.scm
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+ScoreMatrix SECONDARYSTRUCTURE
+#
+# The SECONDARY STRUCTURE substitution matrix, as in <paper name>
+# The first line declares a ScoreMatrix with the name SECONDARYSTRUCTURE (shown in menus)
+#
+# 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
+# Values may be integer or floating point, delimited by tab, space, comma or combinations
+#
+	 E	 H	 C	 * 
+E	 1	 0	 0	 0
+H	 0	 1	 0	 0
+C	 0	 0	 1	 0
+*	 0	 0	 0	 1
\ No newline at end of file