<?xml version="1.0" encoding="UTF-8"?>
<Global name="Annotations (mm9)" version="1">

       <Resource name="GC % (5 base)"
                  path="http://www.broadinstitute.org/igvdata/annotations/mm9/sequence/mm9.gc5Base.tdf"
                  hyperlink="http://genome.ucsc.edu/cgi-bin/hgTrackUi?g=gc5Base"
                  trackLine="viewLimits=0:100"/>


    <Catetory name="Variations and Repeats">
        <Resource name="DB SNP 128"
                  path="http://igv.broadinstitute.org/annotations/mm9/variation/snp128.bed"
                  index="http://igv.broadinstitute.org/annotations/mm9/variation/snp128.bed.idx"
                  hyperlink="http://www.ncbi.nlm.nih.gov/SNP/"
                  url="http://www.ncbi.nlm.nih.gov/SNP/snp_ref.cgi?type=rs&amp;rs=$$"/>

        <Resource name="Simple Repeats"
                  path="http://igvdata.broadinstitute.org/annotations/mm9/variation/mm9_simpleRepeats.bed"
                  hyperlink="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=mm9&amp;g=simpleRepeat"/>
        <Resource name="Microsatellites"
                  path="http://igvdata.broadinstitute.org/annotations/mm9/variation/mm9_microsatellite.bed"
                  hyperlink="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=mm9&amp;g=microsat"/>

        <Category name="Repeat Masker"
                  hyperlink="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db==mm9&amp;g=rmsk">
            <Resource name="SINE"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_SINE.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_SINE.bed.idx"
            />
            <Resource name="LINE"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_LINE.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_LINE.bed.idx"
                      />
            <Resource name="LTR"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_LTR.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_LTR.bed.idx"
            />
            <Resource name="DNA"
                      path="http://igv.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_DNA.bed.gz"
                      index="http://igv.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_DNA.bed.gz/tbi"
            />
            <Resource name="Simple"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Simple_repeat.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Simple_repeat.bed.idx"
                      />
            <Resource name="Low Complexity"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Low_complexity.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Low_complexity.bed.idx"
            />
            <Resource name="Satellite"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Satellite.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Satellite.bed.idx"
            />
            <Resource name="RNA"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_RNA.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_RNA.bed.idx"
            />
            <Resource name="Other"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Other.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Other.bed.idx"
            />
            <Resource name="Unknown"
                      path="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Unknown.bed"
                      index="http://igvdata.broadinstitute.org/annotations/mm9/variation/repeat_masker/mm9_repmask_Unknown.bed.idx"
            />
        </Category>

    </Catetory>
     <Category name="Comparative Genomics">
	 	<Resource name="SiPhy pi" 
                  path="http://www.broadinstitute.org/igvdata/annotations/mm9/conservation/pi.mm9.ewig.tdf" 
                  hyperlink="http://www.nature.com/nature/journal/v478/n7370/full/nature10530.html"/>
	 	<Resource name="Phastcons (Verterbrate 30 way)" 
                  path="http://www.broadinstitute.org/igvdata/annotations/mm9/conservation/mm9_phastCons30.wig.tdf" 
                  hyperlink="http://genome.ucsc.edu/cgi-bin/hgTrackUi?hgsid=337030053&amp;g=cons30way"/>
        <Resource name="phlyoP (Verterbrate 30 way)" 
                  path="http://www.broadinstitute.org/igvdata/annotations/mm9/conservation/mm9_phyloP30way.wig.tdf" 
                  hyperlink="http://genome.ucsc.edu/cgi-bin/hgTrackUi?hgsid=337030053&amp;g=cons30way"/>                
    </Category>
        <Resource name="ORegAnno"
                  path="http://igv.broadinstitute.org/annotations/mm9/mm9_oreganno.bed.gz"
                  hyperlink="http://www.oreganno.org/oregano/"/>

</Global>
