src/hg/makeDb/doc/mm9.txt 1.99

Index: src/hg/makeDb/doc/mm9.txt
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/doc/mm9.txt,v
retrieving revision 1.98
retrieving revision 1.99
diff -b -B -U 4 -r1.98 -r1.99
--- src/hg/makeDb/doc/mm9.txt	11 Jun 2009 22:28:31 -0000	1.98
+++ src/hg/makeDb/doc/mm9.txt	12 Jun 2009 17:10:13 -0000	1.99
@@ -9395,8 +9395,10 @@
     # use score 906 for + strand and 480 for - strand. This will show 
     # up black on the track for + strand and grey for - strand.
     # Re-do below and re-load track as appears off by 1 compared to 
     # Ensembl track and other miRNA resources (2009-06-11)
+    # Confirmed with Sam Griffith-Jones that the coordinates in the 
+    # GFF file are 1-based. (2009-06-12).
     awk 'BEGIN {FS="\t"} {OFS="\t"} \
         {if ($0 !~ /#/ && $7 == "+") print $1, $4-1, $5, $9, 960, $7; \
        else if ($0 !~ /#/ && $7 == "-") print $1, $4-1, $5, $9, 480, $7;}' \
         mmMirBaseFormatIdOnly.gff > mmMirBaseFormatIdOnly.bed