diff trf_simpleRepeat.as @ 25:31a41ce128cc draft

planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit 691e5366893905d30943a3cb8cdfb6341f0f5362-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/trf_simpleRepeat.as	Fri Oct 13 12:44:31 2017 -0400
@@ -0,0 +1,20 @@
+table simpleRepeat
+"Describes the Simple Tandem Repeats"
+   (
+   string chrom;      	"Reference sequence chromosome or scaffold"
+   uint   chromStart; 	"Start position in chromosome"
+   uint   chromEnd;   	"End position in chromosome"
+   string name;       	"Simple Repeats tag name"
+   uint   period;     	"Length of repeat unit"
+   float  copyNum;    	"Mean number of copies of repeat"
+   uint   consensusSize;	"Length of consensus sequence"
+   uint   perMatch;  	"Percentage Match"
+   uint   perIndel;  	"Percentage Indel"
+   uint   score; 	"Alignment Score = 2*match-7*mismatch-7*indel; minscore=50"
+   uint   A;  	"Percent of A's in repeat unit"
+   uint   C;  	"Percent of C's in repeat unit"
+   uint   G;  	"Percent of G's in repeat unit"
+   uint   T;  	"Percent of T's in repeat unit"
+   float   entropy;  	"Entropy"
+   lstring sequence;    	"Sequence of repeat unit element"
+   )