# Homer Update File
#
# This file is updated from the Homer website and contains information about data available for
# use with the program.
#
# This file has been further modified by the local update script
#
# Each section has the same format, which is <tab> separated values specifying:
# package name <tab> version <tab> description <tab> url <tab> optional parameters (, separated)
#

SOFTWARE
homer	v4.11.1	Code/Executables, ontologies, motifs for HOMER	http://homer.ucsd.edu/homer/data/software/homer.v4.11.1.zip	./	

ORGANISMS
anemone	v6.3	Nematostella vectensis (anemone) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/anemone.v6.3.zip	data/accession/	45351,NCBI Gene
arabidopsis	v6.3	Arabidopsis thaliana (arabidopsis) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/arabidopsis.v6.3.zip	data/accession/	3702,NCBI Gene
ascomycetes	v6.0	Neurospora crassa (ascomycetes) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/ascomycetes.v6.0.zip	data/accession/	5141,NCBI Gene
balbc_cocci	v5.2	Balbc/J mouse and Coccidioides genome combined	http://homer.ucsd.edu/homer/data/organisms/balbc_cocci.v5.2.zip	data/accession/	balbc_cocci
bee	v6.3	Apis mellifera (bee) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/bee.v6.3.zip	data/accession/	7460,NCBI Gene
chicken	v6.3	Gallus gallus (chicken) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/chicken.v6.3.zip	data/accession/	9031,NCBI Gene
chlamy	v6.3	Chlamydomonas reinhardtii (chlamy) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/chlamy.v6.3.zip	data/accession/	3055,NCBI Gene
ciliate	v6.3	Tetrahymena thermophila (ciliate) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/ciliate.v6.3.zip	data/accession/	312017,NCBI Gene
ciona	v6.3	Ciona intestinalis (ciona) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/ciona.v6.3.zip	data/accession/	7719,NCBI Gene
cocci	v6.3	Coccidioides immitis RS (cocci) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/cocci.v6.3.zip	data/accession/	246410,NCBI Gene
corn	v6.3	Zea mays (corn) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/corn.v6.3.zip	data/accession/	4577,NCBI Gene
cow	v5.4	Bos taurus (cow) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/cow.v5.4.zip	data/accession/	9913,NCBI Gene
diatom	v6.3	Phaeodactylum tricornutum (diatom) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/diatom.v6.3.zip	data/accession/	556484,NCBI Gene
dicty	v6.3	Dictyostelium discoideum (dicty) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/dicty.v6.3.zip	data/accession/	352472,NCBI Gene
dog	v6.3	Canis lupus familiaris (dog) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/dog.v6.3.zip	data/accession/	9615,NCBI Gene
fly	v6.3	Drosophila melanogaster (fly) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/fly.v6.3.zip	data/accession/	7227,NCBI Gene
frog	v6.3	Xenopus tropicalis (frog) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/frog.v6.3.zip	data/accession/	8364,NCBI Gene
fugu	v6.3	Takifugu rubripes (fugu) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/fugu.v6.3.zip	data/accession/	31033,NCBI Gene
human	v6.3	Homo sapiens (human) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/human.v6.3.zip	data/accession/	9606,NCBI Gene
hydra	v6.3	Hydra vulgaris (hydra) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/hydra.v6.3.zip	data/accession/	6087,NCBI Gene
laevis	v6.3	Xenopus laevis (laevis) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/laevis.v6.3.zip	data/accession/	8355,NCBI Gene
lamprey	v6.3	Petromyzon marinus (lamprey) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/lamprey.v6.3.zip	data/accession/	7757,NCBI Gene
mosquito	v6.3	Anopheles gambiae (mosquito) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/mosquito.v6.3.zip	data/accession/	180454,NCBI Gene
mouse	v6.3	Mus musculus (mouse) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/mouse.v6.3.zip	data/accession/	10090,NCBI Gene
mushroom	v6.3	Agaricus bisporus (mushroom) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/mushroom.v6.3.zip	data/accession/	597362,NCBI Gene
ncrassa	v6.3	Neurospora crassa (ncrassa) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/ncrassa.v6.3.zip	data/accession/	367110,NCBI Gene
patens	v6.3	Physcomitrella patens (patens) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/patens.v6.3.zip	data/accession/	3218,NCBI Gene
pig	v6.3	Sus scrofa (pig) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/pig.v6.3.zip	data/accession/	9823,NCBI Gene
pombe	v6.3	Schizosaccharomyces pombe (pombe) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/pombe.v6.3.zip	data/accession/	4896,NCBI Gene
pseudonana	v6.3	Thalassiosira pseudonana (pseudonana) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/pseudonana.v6.3.zip	data/accession/	296543,NCBI Gene
rat	v6.3	Rattus norvegicus (rat) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/rat.v6.3.zip	data/accession/	10116,NCBI Gene
rhesus	v6.3	Macaca mulatta (rhesus) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/rhesus.v6.3.zip	data/accession/	9544,NCBI Gene
rice	v6.3	Oryza sativa (rice) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/rice.v6.3.zip	data/accession/	39947,NCBI Gene
seahare	v6.3	Aplysia californica (seahare) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/seahare.v6.3.zip	data/accession/	6500,NCBI Gene
selaginella	v6.3	Selaginella moellendorffii (selaginella) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/selaginella.v6.3.zip	data/accession/	88036,NCBI Gene
tomato	v6.3	Solanum lycopersicum (tomato) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/tomato.v6.3.zip	data/accession/	4081,NCBI Gene
urchin	v6.3	Strongylocentrotus purpuratus (urchin) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/urchin.v6.3.zip	data/accession/	7668,NCBI Gene
volvox	v6.3	Volvox carteri (volvox) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/volvox.v6.3.zip	data/accession/	3068,NCBI Gene
worm	v6.3	Caenorhabditis elegans (worm) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/worm.v6.3.zip	data/accession/	6239,NCBI Gene
yeast	v6.3	Saccharomyces cerevisiae (yeast) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/yeast.v6.3.zip	data/accession/	559292,NCBI Gene
zebrafinch	v6.3	Taeniopygia guttata (zebrafinch) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/zebrafinch.v6.3.zip	data/accession/	59729,NCBI Gene
zebrafish	v6.3	Danio rerio (zebrafish) accession and ontology information	http://homer.ucsd.edu/homer/data/organisms/zebrafish.v6.3.zip	data/accession/	7955,NCBI Gene

PROMOTERS
arabidopsis	v6.3	arabidopsis promoters (arabidopsis)	http://homer.ucsd.edu/homer/data/promoters/arabidopsis.v6.3.zip	data/promoters/	arabidopsis,tair10,refseq,-2000,2000
chicken	v5.5	chicken promoters (chicken)	http://homer.ucsd.edu/homer/data/promoters/chicken.v5.5.zip	data/promoters/	chicken,galGal4,refseq,-2000,2000
fly	v5.5	fly promoters (fly)	http://homer.ucsd.edu/homer/data/promoters/fly.v5.5.zip	data/promoters/	fly,dm3,refseq,-2000,2000
frog	v5.5	frog promoters (frog)	http://homer.ucsd.edu/homer/data/promoters/frog.v5.5.zip	data/promoters/	frog,xenTro2,refseq,-2000,2000
human	v5.5	human promoters (human)	http://homer.ucsd.edu/homer/data/promoters/human.v5.5.zip	data/promoters/	human,hg19,refseq,-2000,2000
mouse	v5.5	mouse promoters (mouse)	http://homer.ucsd.edu/homer/data/promoters/mouse.v5.5.zip	data/promoters/	mouse,mm9,refseq,-2000,2000
rat	v5.5	rat promoters (rat)	http://homer.ucsd.edu/homer/data/promoters/rat.v5.5.zip	data/promoters/	rat,rn5,refseq,-2000,2000
worm	v5.5	worm promoters (worm)	http://homer.ucsd.edu/homer/data/promoters/worm.v5.5.zip	data/promoters/	worm,ce10,refseq,-2000,2000
yeast	v5.5	yeast promoters (yeast)	http://homer.ucsd.edu/homer/data/promoters/yeast.v5.5.zip	data/promoters/	yeast,sacCer3,orf,-2000,2000
zebrafish	v5.5	zebrafish promoters (zebrafish)	http://homer.ucsd.edu/homer/data/promoters/zebrafish.v5.5.zip	data/promoters/	zebrafish,danRer7,refseq,-2000,2000

GENOMES
AGPv3	v5.10	corn genome and annotation (AGPv3)	http://homer.ucsd.edu/homer/data/genomes/AGPv3.v5.10.zip	data/genomes/AGPv3/	corn,default
anoGam1	v6.4	mosquito genome and annotation for UCSC anoGam1	http://homer.ucsd.edu/homer/data/genomes/anoGam1.v6.4.zip	data/genomes/anoGam1/	mosquito,default
apiMel2	v6.4	bee genome and annotation for UCSC apiMel2	http://homer.ucsd.edu/homer/data/genomes/apiMel2.v6.4.zip	data/genomes/apiMel2/	bee,default
apiMel3	v6.4	bee genome and annotation for UCSC apiMel3	http://homer.ucsd.edu/homer/data/genomes/apiMel3.v6.4.zip	data/genomes/apiMel3/	bee,default
aplCal1	v6.4	seahare genome and annotation for UCSC aplCal1	http://homer.ucsd.edu/homer/data/genomes/aplCal1.v6.4.zip	data/genomes/aplCal1/	seahare,default
canFam3	v6.4	dog genome and annotation for UCSC canFam3	http://homer.ucsd.edu/homer/data/genomes/canFam3.v6.4.zip	data/genomes/canFam3/	dog,default
ce10	v6.4	worm genome and annotation for UCSC ce10	http://homer.ucsd.edu/homer/data/genomes/ce10.v6.4.zip	data/genomes/ce10/	worm,default
ce11	v6.4	worm genome and annotation for UCSC ce11	http://homer.ucsd.edu/homer/data/genomes/ce11.v6.4.zip	data/genomes/ce11/	worm,default
ce6	v6.4	worm genome and annotation for UCSC ce6	http://homer.ucsd.edu/homer/data/genomes/ce6.v6.4.zip	data/genomes/ce6/	worm,default
ci2	v6.4	ciona genome and annotation for UCSC ci2	http://homer.ucsd.edu/homer/data/genomes/ci2.v6.4.zip	data/genomes/ci2/	ciona,default
ci3	v6.4	ciona genome and annotation for UCSC ci3	http://homer.ucsd.edu/homer/data/genomes/ci3.v6.4.zip	data/genomes/ci3/	ciona,default
corn.AGPv3	v5.10	corn genome and annotation (corn.AGPv3)	http://homer.ucsd.edu/homer/data/genomes/corn.AGPv3.v5.10.zip	data/genomes/corn.AGPv3/	corn,default
danRer10	v6.4	zebrafish genome and annotation for UCSC danRer10	http://homer.ucsd.edu/homer/data/genomes/danRer10.v6.4.zip	data/genomes/danRer10/	zebrafish,default
danRer11	v6.4	zebrafish genome and annotation for UCSC danRer11	http://homer.ucsd.edu/homer/data/genomes/danRer11.v6.4.zip	data/genomes/danRer11/	zebrafish,default
danRer7	v6.4	zebrafish genome and annotation for UCSC danRer7	http://homer.ucsd.edu/homer/data/genomes/danRer7.v6.4.zip	data/genomes/danRer7/	zebrafish,default
dm3	v6.0	fly genome and annotation for UCSC dm3	http://homer.ucsd.edu/homer/data/genomes/dm3.v6.0.zip	data/genomes/dm3/	fly,default
dm6	v6.4	fly genome and annotation for UCSC dm6	http://homer.ucsd.edu/homer/data/genomes/dm6.v6.4.zip	data/genomes/dm6/	fly,default
fr3	v6.4	fugu genome and annotation for UCSC fr3	http://homer.ucsd.edu/homer/data/genomes/fr3.v6.4.zip	data/genomes/fr3/	fugu,default
galGal4	v6.4	chicken genome and annotation for UCSC galGal4	http://homer.ucsd.edu/homer/data/genomes/galGal4.v6.4.zip	data/genomes/galGal4/	chicken,default
galGal5	v6.4	chicken genome and annotation for UCSC galGal5	http://homer.ucsd.edu/homer/data/genomes/galGal5.v6.4.zip	data/genomes/galGal5/	chicken,default
galGal6	v6.4	chicken genome and annotation for UCSC galGal6	http://homer.ucsd.edu/homer/data/genomes/galGal6.v6.4.zip	data/genomes/galGal6/	chicken,default
gorGor3	v6.4	human genome and annotation for UCSC gorGor3	http://homer.ucsd.edu/homer/data/genomes/gorGor3.v6.4.zip	data/genomes/gorGor3/	human,default
gorGor4	v6.4	human genome and annotation for UCSC gorGor4	http://homer.ucsd.edu/homer/data/genomes/gorGor4.v6.4.zip	data/genomes/gorGor4/	human,default
gorGor5	v6.4	human genome and annotation for UCSC gorGor5	http://homer.ucsd.edu/homer/data/genomes/gorGor5.v6.4.zip	data/genomes/gorGor5/	human,default
hg17	v6.4	human genome and annotation for UCSC hg17	http://homer.ucsd.edu/homer/data/genomes/hg17.v6.4.zip	data/genomes/hg17/	human,default
hg18	v6.4	human genome and annotation for UCSC hg18	http://homer.ucsd.edu/homer/data/genomes/hg18.v6.4.zip	data/genomes/hg18/	human,default
hg19	v6.4	human genome and annotation for UCSC hg19	http://homer.ucsd.edu/homer/data/genomes/hg19.v6.4.zip	data/genomes/hg19/	human,default
hg38	v6.4	human genome and annotation for UCSC hg38	http://homer.ucsd.edu/homer/data/genomes/hg38.v6.4.zip	data/genomes/hg38/	human,default
mm10	v6.4	mouse genome and annotation for UCSC mm10	http://homer.ucsd.edu/homer/data/genomes/mm10.v6.4.zip	data/genomes/mm10/	mouse,default
mm8	v6.4	mouse genome and annotation for UCSC mm8	http://homer.ucsd.edu/homer/data/genomes/mm8.v6.4.zip	data/genomes/mm8/	mouse,default
mm9	v6.4	mouse genome and annotation for UCSC mm9	http://homer.ucsd.edu/homer/data/genomes/mm9.v6.4.zip	data/genomes/mm9/	mouse,default
panPan1	v6.4	human genome and annotation for UCSC panPan1	http://homer.ucsd.edu/homer/data/genomes/panPan1.v6.4.zip	data/genomes/panPan1/	human,default
panPan2	v6.4	human genome and annotation for UCSC panPan2	http://homer.ucsd.edu/homer/data/genomes/panPan2.v6.4.zip	data/genomes/panPan2/	human,default
panTro3	v6.4	human genome and annotation for UCSC panTro3	http://homer.ucsd.edu/homer/data/genomes/panTro3.v6.4.zip	data/genomes/panTro3/	human,default
panTro4	v6.4	human genome and annotation for UCSC panTro4	http://homer.ucsd.edu/homer/data/genomes/panTro4.v6.4.zip	data/genomes/panTro4/	human,default
panTro5	v6.4	human genome and annotation for UCSC panTro5	http://homer.ucsd.edu/homer/data/genomes/panTro5.v6.4.zip	data/genomes/panTro5/	human,default
panTro6	v6.4	human genome and annotation for UCSC panTro6	http://homer.ucsd.edu/homer/data/genomes/panTro6.v6.4.zip	data/genomes/panTro6/	human,default
papAnu2	v6.4	human genome and annotation for UCSC papAnu2	http://homer.ucsd.edu/homer/data/genomes/papAnu2.v6.4.zip	data/genomes/papAnu2/	human,default
patens.ASM242v1	v5.10	patens genome and annotation (patens.ASM242v1)	http://homer.ucsd.edu/homer/data/genomes/patens.ASM242v1.v5.10.zip	data/genomes/patens.ASM242v1/	patens,default
petMar2	v6.4	lamprey genome and annotation for UCSC petMar2	http://homer.ucsd.edu/homer/data/genomes/petMar2.v6.4.zip	data/genomes/petMar2/	lamprey,default
petMar3	v6.4	lamprey genome and annotation for UCSC petMar3	http://homer.ucsd.edu/homer/data/genomes/petMar3.v6.4.zip	data/genomes/petMar3/	lamprey,default
rheMac2	v6.4	rhesus genome and annotation for UCSC rheMac2	http://homer.ucsd.edu/homer/data/genomes/rheMac2.v6.4.zip	data/genomes/rheMac2/	rhesus,default
rheMac3	v6.4	rhesus genome and annotation for UCSC rheMac3	http://homer.ucsd.edu/homer/data/genomes/rheMac3.v6.4.zip	data/genomes/rheMac3/	rhesus,default
rheMac8	v6.4	rhesus genome and annotation for UCSC rheMac8	http://homer.ucsd.edu/homer/data/genomes/rheMac8.v6.4.zip	data/genomes/rheMac8/	rhesus,default
rice.IRGSP-1.0	v5.10	rice genome and annotation (rice.IRGSP-1.0)	http://homer.ucsd.edu/homer/data/genomes/rice.IRGSP-1.0.v5.10.zip	data/genomes/rice.IRGSP-1.0/	rice,default
rn4	v6.4	rat genome and annotation for UCSC rn4	http://homer.ucsd.edu/homer/data/genomes/rn4.v6.4.zip	data/genomes/rn4/	rat,default
rn5	v6.4	rat genome and annotation for UCSC rn5	http://homer.ucsd.edu/homer/data/genomes/rn5.v6.4.zip	data/genomes/rn5/	rat,default
rn6	v6.4	rat genome and annotation for UCSC rn6	http://homer.ucsd.edu/homer/data/genomes/rn6.v6.4.zip	data/genomes/rn6/	rat,default
sacCer2	v6.4	yeast genome and annotation for UCSC sacCer2	http://homer.ucsd.edu/homer/data/genomes/sacCer2.v6.4.zip	data/genomes/sacCer2/	yeast,default
sacCer3	v6.4	yeast genome and annotation for UCSC sacCer3	http://homer.ucsd.edu/homer/data/genomes/sacCer3.v6.4.zip	data/genomes/sacCer3/	yeast,default
strPur2	v6.0	urchin genome and annotation for UCSC strPur2	http://homer.ucsd.edu/homer/data/genomes/strPur2.v6.0.zip	data/genomes/strPur2/	urchin,default
susScr11	v6.4	pig genome and annotation for UCSC susScr11	http://homer.ucsd.edu/homer/data/genomes/susScr11.v6.4.zip	data/genomes/susScr11/	pig,default
susScr3	v6.4	pig genome and annotation for UCSC susScr3	http://homer.ucsd.edu/homer/data/genomes/susScr3.v6.4.zip	data/genomes/susScr3/	pig,default
taeGut2	v6.4	zebrafinch genome and annotation for UCSC taeGut2	http://homer.ucsd.edu/homer/data/genomes/taeGut2.v6.4.zip	data/genomes/taeGut2/	zebrafinch,default
tair10	v6.0	arabidopsis genome and annotation (tair10)	http://homer.ucsd.edu/homer/data/genomes/tair10.v6.0.zip	data/genomes/tair10/	arabidopsis,default
tetNig2	v6.4	fugu genome and annotation for UCSC tetNig2	http://homer.ucsd.edu/homer/data/genomes/tetNig2.v6.4.zip	data/genomes/tetNig2/	fugu,default
xenTro2	v6.4	frog genome and annotation for UCSC xenTro2	http://homer.ucsd.edu/homer/data/genomes/xenTro2.v6.4.zip	data/genomes/xenTro2/	frog,default
xenTro3	v6.4	frog genome and annotation for UCSC xenTro3	http://homer.ucsd.edu/homer/data/genomes/xenTro3.v6.4.zip	data/genomes/xenTro3/	frog,default
xenTro7	v6.4	frog genome and annotation for UCSC xenTro7	http://homer.ucsd.edu/homer/data/genomes/xenTro7.v6.4.zip	data/genomes/xenTro7/	frog,default
xenTro9	v6.4	frog genome and annotation for UCSC xenTro9	http://homer.ucsd.edu/homer/data/genomes/xenTro9.v6.4.zip	data/genomes/xenTro9/	frog,default
