Index: src/hg/makeDb/trackDb/trackDb.chainNet.ra
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/trackDb/trackDb.chainNet.ra,v
retrieving revision 1.17
retrieving revision 1.18
diff -b -B -U 4 -r1.17 -r1.18
--- src/hg/makeDb/trackDb/trackDb.chainNet.ra	23 Dec 2009 20:09:01 -0000	1.17
+++ src/hg/makeDb/trackDb/trackDb.chainNet.ra	23 Dec 2009 20:40:03 -0000	1.18
@@ -1387,8 +1387,48 @@
     shortLabel $o_Organism Net
     longLabel $o_Organism ($o_date/$o_db) Alignment net
     type netAlign ponAbe2 chainPonAbe2
 
+track chainNetCalJac1
+release alpha
+compositeTrack on
+shortLabel $o_Organism Chain/Net
+longLabel $o_Organism (Jan. 2006/calJac1), Chain and Net Alignments
+subGroup1 view Views chain=Chain net=Net
+dragAndDrop subTracks
+visibility hide
+visibilityViewDefaults chain=pack net=dense
+group compGeno
+noInherit on
+priority 498
+color 100,50,0
+altColor 255,240,200
+type bed 3
+settingsByView chain:spectrum=on
+sortOrder view=+
+matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91
+matrixHeader A, C, G, T
+otherDb calJac1
+chainMinScore 3000
+chainLinearGap medium
+html chainNet
+
+    track chainCalJac1
+    release alpha
+    subTrack chainNetCalJac1
+    subGroups view=chain
+    shortLabel $o_Organism Chain
+    longLabel $o_Organism ($o_date/$o_db) Chained Alignments
+    type chain calJac1
+
+    track netCalJac1
+    release alpha
+    subTrack chainNetCalJac1
+    subGroups view=net
+    shortLabel $o_Organism Net
+    longLabel $o_Organism ($o_date/$o_db) Alignment net
+    type netAlign calJac1 chainCalJac1
+
 track chainNetRheMac2
 release alpha
 compositeTrack on
 shortLabel Rhesus Chain/Net

