464078525816d376c389e73c283e0ee40b6d0f2b hiram Mon Apr 22 21:36:46 2024 -0700 add a number of T2T primates no redmine diff --git src/hg/makeDb/trackDb/trackDb.chainNet.primates.ra src/hg/makeDb/trackDb/trackDb.chainNet.primates.ra index ac2abf7..ead4c2a 100644 --- src/hg/makeDb/trackDb/trackDb.chainNet.primates.ra +++ src/hg/makeDb/trackDb/trackDb.chainNet.primates.ra @@ -1,2389 +1,3268 @@ +############################################################################## +# GCA_029289425.2 - pygmy chimpanzee - Pan paniscus - taxId: 9597 - primates +############################################################################## +track chainNetGCA_029289425.2 +compositeTrack on +shortLabel pygmy chimpanzee Chain/Net +longLabel pygmy chimpanzee (Jan. 2024 GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 496 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCA_029289425.2 +html chainNet + + track chainNetGCA_029289425.2Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCA_029289425.2 + spectrum on + + track chainGCA_029289425.2 + parent chainNetGCA_029289425.2Viewchain + subGroups view=chain + shortLabel pygmy chimpanzee Chain + longLabel pygmy chimpanzee (Jan. 2024 GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri) Chained Alignments + type bigChain GCA_029289425.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCA_029289425.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCA_029289425.2Link.bb + + track chainSynGCA_029289425.2 + parent chainNetGCA_029289425.2Viewchain + subGroups view=chain + shortLabel pygmy chimpanzee synChain + longLabel pygmy chimpanzee (Jan. 2024 GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri) Syntenic Chained Alignments + type bigChain GCA_029289425.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_029289425.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_029289425.2Link.bb + + track chainRBestGCA_029289425.2 + parent chainNetGCA_029289425.2Viewchain + subGroups view=chain + shortLabel pygmy chimpanzee rBestChain + longLabel pygmy chimpanzee (Jan. 2024 GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri) Reciprocal Best Chained Alignments + type bigChain GCA_029289425.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_029289425.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_029289425.2Link.bb + + track mafNetGCA_029289425.2Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCA_029289425.2 + + track netGCA_029289425.2 + parent mafNetGCA_029289425.2Viewnet + subGroups view=net + shortLabel pygmy chimpanzee mafNet + longLabel pygmy chimpanzee (Jan. 2024 GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_029289425.2.net.bb + summary /gbdb/$D/chainNet/$D.GCA_029289425.2.net.summary.bb + speciesOrder GCA_029289425.2 + speciesLabels GCA_029289425.2="pygmy chimpanzee" + + track synNetGCA_029289425.2 + parent mafNetGCA_029289425.2Viewnet + subGroups view=net + shortLabel pygmy chimpanzee synNet + longLabel pygmy chimpanzee (Jan. 2024 GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_029289425.2.synNet.bb + summary /gbdb/$D/chainNet/$D.GCA_029289425.2.synNet.summary.bb + speciesOrder GCA_029289425.2 + speciesLabels GCA_029289425.2="pygmy chimpanzee" + + track rbestNetGCA_029289425.2 + parent mafNetGCA_029289425.2Viewnet + subGroups view=net + shortLabel pygmy chimpanzee rBestNet + longLabel pygmy chimpanzee (Jan. 2024 GCA_029289425.2_NHGRI_mPanPan1-v2.0_pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_029289425.2.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCA_029289425.2.rbestNet.summary.bb + speciesOrder GCA_029289425.2 + speciesLabels GCA_029289425.2="pygmy chimpanzee" + +############################################################################## +# GCA_028858775.2 - chimpanzee - Pan troglodytes - taxId: 9598 - primates +############################################################################## +track chainNetGCA_028858775.2 +compositeTrack on +shortLabel chimpanzee Chain/Net +longLabel chimpanzee (Jan. 2024 GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 497 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCA_028858775.2 +html chainNet + + track chainNetGCA_028858775.2Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCA_028858775.2 + spectrum on + + track chainGCA_028858775.2 + parent chainNetGCA_028858775.2Viewchain + subGroups view=chain + shortLabel chimpanzee Chain + longLabel chimpanzee (Jan. 2024 GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri) Chained Alignments + type bigChain GCA_028858775.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCA_028858775.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCA_028858775.2Link.bb + + track chainSynGCA_028858775.2 + parent chainNetGCA_028858775.2Viewchain + subGroups view=chain + shortLabel chimpanzee synChain + longLabel chimpanzee (Jan. 2024 GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri) Syntenic Chained Alignments + type bigChain GCA_028858775.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028858775.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028858775.2Link.bb + + track chainRBestGCA_028858775.2 + parent chainNetGCA_028858775.2Viewchain + subGroups view=chain + shortLabel chimpanzee rBestChain + longLabel chimpanzee (Jan. 2024 GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri) Reciprocal Best Chained Alignments + type bigChain GCA_028858775.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028858775.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028858775.2Link.bb + + track mafNetGCA_028858775.2Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCA_028858775.2 + + track netGCA_028858775.2 + parent mafNetGCA_028858775.2Viewnet + subGroups view=net + shortLabel chimpanzee mafNet + longLabel chimpanzee (Jan. 2024 GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028858775.2.net.bb + summary /gbdb/$D/chainNet/$D.GCA_028858775.2.net.summary.bb + speciesOrder GCA_028858775.2 + speciesLabels GCA_028858775.2="chimpanzee" + + track synNetGCA_028858775.2 + parent mafNetGCA_028858775.2Viewnet + subGroups view=net + shortLabel chimpanzee synNet + longLabel chimpanzee (Jan. 2024 GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028858775.2.synNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028858775.2.synNet.summary.bb + speciesOrder GCA_028858775.2 + speciesLabels GCA_028858775.2="chimpanzee" + + track rbestNetGCA_028858775.2 + parent mafNetGCA_028858775.2Viewnet + subGroups view=net + shortLabel chimpanzee rBestNet + longLabel chimpanzee (Jan. 2024 GCA_028858775.2_NHGRI_mPanTro3-v2.0_pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028858775.2.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028858775.2.rbestNet.summary.bb + speciesOrder GCA_028858775.2 + speciesLabels GCA_028858775.2="chimpanzee" + ################################################################ # panTro6 - chimp - Pan troglodytes - primate - taxId 9598 ################################################################ track chainNetPanTro6 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panTro6 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetPanTro6Viewchain shortLabel Chain view chain visibility pack parent chainNetPanTro6 spectrum on track chainPanTro6 parent chainNetPanTro6Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panTro6 html chainNet track chainNetPanTro6Viewnet shortLabel Net view net visibility full parent chainNetPanTro6 track netPanTro6 parent chainNetPanTro6Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign panTro6 chainPanTro6 html chainNet ################################################################ # panTro5 - chimp - Pan troglodytes - primate ################################################################ track chainNetPanTro5 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panTro5 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetPanTro5Viewchain shortLabel Chain view chain visibility pack parent chainNetPanTro5 spectrum on track chainPanTro5 parent chainNetPanTro5Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panTro5 html chainNet track chainNetPanTro5Viewnet shortLabel Net view net visibility full parent chainNetPanTro5 track netPanTro5 parent chainNetPanTro5Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign panTro5 chainPanTro5 html chainNet ################################################################ # panTro4 - chimp - Pan troglodytes - primate ################################################################ track chainNetPanTro4 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panTro4 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetPanTro4Viewchain shortLabel Chain view chain visibility pack parent chainNetPanTro4 spectrum on track chainPanTro4 parent chainNetPanTro4Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panTro4 html chainNet track chainNetPanTro4Viewnet shortLabel Net view net visibility full parent chainNetPanTro4 track netPanTro4 parent chainNetPanTro4Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign panTro4 chainPanTro4 html chainNet ################################################################ # panTro3 - chimp - Pan troglodytes - primate ################################################################ track chainNetPanTro3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panTro3 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetPanTro3Viewchain shortLabel Chain view chain visibility pack parent chainNetPanTro3 spectrum on track chainPanTro3 parent chainNetPanTro3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panTro3 html chainNet track chainNetPanTro3Viewnet shortLabel Net view net visibility full parent chainNetPanTro3 track netPanTro3 parent chainNetPanTro3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign panTro3 chainPanTro3 html chainNet ################################################################ # panTro2 - chimp - Pan troglodytes - primate ################################################################ track chainNetPanTro2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panTro2 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetPanTro2Viewchain shortLabel Chain view chain visibility pack parent chainNetPanTro2 spectrum on track chainPanTro2 parent chainNetPanTro2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panTro2 html chainNet track chainNetPanTro2Viewnet shortLabel Net view net visibility full parent chainNetPanTro2 track netPanTro2 parent chainNetPanTro2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign panTro2 chainPanTro2 html chainNet ################################################################ # panTro1 - chimp - Pan troglodytes - primate ################################################################ track chainNetPanTro1 compositeTrack on shortLabel $o_db Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panTro1 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetPanTro1Viewchain shortLabel Chain view chain visibility pack parent chainNetPanTro1 spectrum on track chainPanTro1 parent chainNetPanTro1Viewchain subGroups view=chain shortLabel $o_db Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panTro1 html chainNet track chainNetPanTro1Viewnet shortLabel Net view net visibility full parent chainNetPanTro1 track netPanTro1 parent chainNetPanTro1Viewnet subGroups view=net shortLabel $o_db Net longLabel $o_Organism ($o_date) Alignment net type netAlign panTro1 chainPanTro1 html chainNet ################################################################ # macNem1 - Pig-tailed macaque - Macaca nemestrina - primate - 9545 ################################################################ track chainNetMacNem1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb macNem1 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetMacNem1Viewchain shortLabel Chain view chain visibility pack parent chainNetMacNem1 spectrum on track chainMacNem1 parent chainNetMacNem1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain macNem1 html chainNet track chainNetMacNem1Viewnet shortLabel Net view net visibility full parent chainNetMacNem1 track netMacNem1 parent chainNetMacNem1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign macNem1 chainMacNem1 html chainNet ################################################################ # rheMac10 - Rhesus - Macaca mulatta - primate ################################################################ track chainNetRheMac10 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb rheMac10 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetRheMac10Viewchain shortLabel Chain view chain visibility pack parent chainNetRheMac10 spectrum on track chainRheMac10 parent chainNetRheMac10Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain rheMac10 html chainNet track chainNetRheMac10Viewnet shortLabel Net view net visibility full parent chainNetRheMac10 track netRheMac10 parent chainNetRheMac10Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign rheMac10 chainRheMac10 html chainNet ################################################################ # rheMac8 - Rhesus - Macaca mulatta - primate ################################################################ track chainNetRheMac8 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 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 rheMac8 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetRheMac8Viewchain shortLabel Chain view chain visibility pack parent chainNetRheMac8 spectrum on track chainRheMac8 parent chainNetRheMac8Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain rheMac8 html chainNet track chainNetRheMac8Viewnet shortLabel Net view net visibility full parent chainNetRheMac8 track netRheMac8 parent chainNetRheMac8Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign rheMac8 chainRheMac8 html chainNet ################################################################ # rheMac3 - Rhesus - Macaca mulatta - primate ################################################################ track chainNetRheMac3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 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 rheMac3 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetRheMac3Viewchain shortLabel Chain view chain visibility pack parent chainNetRheMac3 spectrum on track chainRheMac3 parent chainNetRheMac3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain rheMac3 html chainNet track chainNetRheMac3Viewnet shortLabel Net view net visibility full parent chainNetRheMac3 track netRheMac3 parent chainNetRheMac3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign rheMac3 chainRheMac3 html chainNet ################################################################ # rheMac2 - Rhesus - Macaca mulatta - primate ################################################################ track chainNetRheMac2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 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 rheMac2 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetRheMac2Viewchain shortLabel Chain view chain visibility pack parent chainNetRheMac2 spectrum on track chainRheMac2 parent chainNetRheMac2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain rheMac2 html chainNet track chainNetRheMac2Viewnet shortLabel Net view net visibility full parent chainNetRheMac2 track netRheMac2 parent chainNetRheMac2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign rheMac2 chainRheMac2 html chainNet ################################################################ # rheMac1 - Rhesus - Macaca mulatta - primate ################################################################ track chainNetRheMac1 compositeTrack on shortLabel $o_db Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 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 rheMac1 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetRheMac1Viewchain shortLabel Chain view chain visibility pack parent chainNetRheMac1 spectrum on track chainRheMac1 parent chainNetRheMac1Viewchain subGroups view=chain shortLabel $o_db Chain longLabel $o_Organism ($o_date) Chained Alignments type chain rheMac1 html chainNet track chainNetRheMac1Viewnet shortLabel Net view net visibility full parent chainNetRheMac1 track netRheMac1 parent chainNetRheMac1Viewnet subGroups view=net shortLabel $o_db Net longLabel $o_Organism ($o_date) Alignment net type netAlign rheMac1 chainRheMac1 html chainNet +############################################################################## +# GCA_029281585.2 - western lowland gorilla - Gorilla gorilla gorilla - taxId: 9595 - primates +############################################################################## +track chainNetGCA_029281585.2 +compositeTrack on +shortLabel western lowland gorilla Chain/Net +longLabel western lowland gorilla (Jan. 2024 GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 220.2 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCA_029281585.2 +html chainNet + + track chainNetGCA_029281585.2Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCA_029281585.2 + spectrum on + + track chainGCA_029281585.2 + parent chainNetGCA_029281585.2Viewchain + subGroups view=chain + shortLabel western lowland gorilla Chain + longLabel western lowland gorilla (Jan. 2024 GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri) Chained Alignments + type bigChain GCA_029281585.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCA_029281585.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCA_029281585.2Link.bb + + track chainSynGCA_029281585.2 + parent chainNetGCA_029281585.2Viewchain + subGroups view=chain + shortLabel western lowland gorilla synChain + longLabel western lowland gorilla (Jan. 2024 GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri) Syntenic Chained Alignments + type bigChain GCA_029281585.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_029281585.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_029281585.2Link.bb + + track chainRBestGCA_029281585.2 + parent chainNetGCA_029281585.2Viewchain + subGroups view=chain + shortLabel western lowland gorilla rBestChain + longLabel western lowland gorilla (Jan. 2024 GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri) Reciprocal Best Chained Alignments + type bigChain GCA_029281585.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_029281585.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_029281585.2Link.bb + + track mafNetGCA_029281585.2Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCA_029281585.2 + + track netGCA_029281585.2 + parent mafNetGCA_029281585.2Viewnet + subGroups view=net + shortLabel western lowland gorilla mafNet + longLabel western lowland gorilla (Jan. 2024 GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_029281585.2.net.bb + summary /gbdb/$D/chainNet/$D.GCA_029281585.2.net.summary.bb + speciesOrder GCA_029281585.2 + speciesLabels GCA_029281585.2="western lowland gorilla" + + track synNetGCA_029281585.2 + parent mafNetGCA_029281585.2Viewnet + subGroups view=net + shortLabel western lowland gorilla synNet + longLabel western lowland gorilla (Jan. 2024 GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_029281585.2.synNet.bb + summary /gbdb/$D/chainNet/$D.GCA_029281585.2.synNet.summary.bb + speciesOrder GCA_029281585.2 + speciesLabels GCA_029281585.2="western lowland gorilla" + + track rbestNetGCA_029281585.2 + parent mafNetGCA_029281585.2Viewnet + subGroups view=net + shortLabel western lowland gorilla rBestNet + longLabel western lowland gorilla (Jan. 2024 GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_029281585.2.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCA_029281585.2.rbestNet.summary.bb + speciesOrder GCA_029281585.2 + speciesLabels GCA_029281585.2="western lowland gorilla" + ################################################################ # gorGor6 - Gorilla - Gorilla gorilla - primate ################################################################ track chainNetGorGor6 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 220.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrixHeader A, C, G, T matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 3000 chainLinearGap medium otherDb gorGor6 html chainNet track chainNetGorGor6Viewchain shortLabel Chain view chain visibility pack parent chainNetGorGor6 spectrum on track chainGorGor6 parent chainNetGorGor6Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain gorGor6 html chainNet track chainNetGorGor6Viewnet shortLabel Net view net visibility full parent chainNetGorGor6 track netGorGor6 parent chainNetGorGor6Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign gorGor6 chainGorGor6 html chainNet ################################################################ # gorGor5 - Gorilla - Gorilla gorilla - primate ################################################################ track chainNetGorGor5 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 220.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrixHeader A, C, G, T matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 3000 chainLinearGap medium otherDb gorGor5 html chainNet track chainNetGorGor5Viewchain shortLabel Chain view chain visibility pack parent chainNetGorGor5 spectrum on track chainGorGor5 parent chainNetGorGor5Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain gorGor5 html chainNet track chainNetGorGor5Viewnet shortLabel Net view net visibility full parent chainNetGorGor5 track netGorGor5 parent chainNetGorGor5Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign gorGor5 chainGorGor5 html chainNet ################################################################ # gorGor4 - Gorilla - Gorilla gorilla - primate ################################################################ track chainNetGorGor4 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 220.3 color 0,0,0 altColor 100,50,0 type bed 3 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 gorGor4 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetGorGor4Viewchain shortLabel Chain view chain visibility pack parent chainNetGorGor4 spectrum on track chainGorGor4 parent chainNetGorGor4Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain gorGor4 html chainNet track chainNetGorGor4Viewnet shortLabel Net view net visibility full parent chainNetGorGor4 track netGorGor4 parent chainNetGorGor4Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign gorGor4 chainGorGor4 html chainNet ################################################################ # gorGor3 - Gorilla - Gorilla gorilla - primate ################################################################ track chainNetGorGor3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 220.3 color 0,0,0 altColor 100,50,0 type bed 3 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 gorGor3 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetGorGor3Viewchain shortLabel Chain view chain visibility pack parent chainNetGorGor3 spectrum on track chainGorGor3 parent chainNetGorGor3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain gorGor3 html chainNet track chainNetGorGor3Viewnet shortLabel Net view net visibility full parent chainNetGorGor3 track netGorGor3 parent chainNetGorGor3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign gorGor3 chainGorGor3 html chainNet ################################################################ # gorGor2 - Gorilla - Gorilla gorilla - primate ################################################################ track chainNetGorGor2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 220.3 color 0,0,0 altColor 100,50,0 type bed 3 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 gorGor2 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetGorGor2Viewchain shortLabel Chain view chain visibility pack parent chainNetGorGor2 spectrum on track chainGorGor2 parent chainNetGorGor2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain gorGor2 html chainNet track chainNetGorGor2Viewnet shortLabel Net view net visibility full parent chainNetGorGor2 track netGorGor2 parent chainNetGorGor2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign gorGor2 chainGorGor2 html chainNet ################################################################ # gorGor1 - Gorilla - Gorilla gorilla - primate ################################################################ track chainNetGorGor1 compositeTrack on shortLabel $o_db Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 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 gorGor1 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetGorGor1Viewchain shortLabel Chain view chain visibility pack parent chainNetGorGor1 spectrum on track chainGorGor1 parent chainNetGorGor1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain gorGor1 html chainNet track chainNetGorGor1Viewnet shortLabel Net view net visibility full parent chainNetGorGor1 track netGorGor1 parent chainNetGorGor1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign gorGor1 chainGorGor1 html chainNet +############################################################################## +# GCA_028885625.2 - Bornean orangutan - Pongo pygmaeus - taxId: 9600 - primates +############################################################################## +track chainNetGCA_028885625.2 +compositeTrack on +shortLabel Bornean orangutan Chain/Net +longLabel Bornean orangutan (Jan. 2024 GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 496 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCA_028885625.2 +html chainNet + + track chainNetGCA_028885625.2Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCA_028885625.2 + spectrum on + + track chainGCA_028885625.2 + parent chainNetGCA_028885625.2Viewchain + subGroups view=chain + shortLabel Bornean orangutan Chain + longLabel Bornean orangutan (Jan. 2024 GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri) Chained Alignments + type bigChain GCA_028885625.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCA_028885625.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCA_028885625.2Link.bb + + track chainSynGCA_028885625.2 + parent chainNetGCA_028885625.2Viewchain + subGroups view=chain + shortLabel Bornean orangutan synChain + longLabel Bornean orangutan (Jan. 2024 GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri) Syntenic Chained Alignments + type bigChain GCA_028885625.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028885625.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028885625.2Link.bb + + track chainRBestGCA_028885625.2 + parent chainNetGCA_028885625.2Viewchain + subGroups view=chain + shortLabel Bornean orangutan rBestChain + longLabel Bornean orangutan (Jan. 2024 GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri) Reciprocal Best Chained Alignments + type bigChain GCA_028885625.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028885625.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028885625.2Link.bb + + track mafNetGCA_028885625.2Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCA_028885625.2 + + track netGCA_028885625.2 + parent mafNetGCA_028885625.2Viewnet + subGroups view=net + shortLabel Bornean orangutan mafNet + longLabel Bornean orangutan (Jan. 2024 GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028885625.2.net.bb + summary /gbdb/$D/chainNet/$D.GCA_028885625.2.net.summary.bb + speciesOrder GCA_028885625.2 + speciesLabels GCA_028885625.2="Bornean orangutan" + + track synNetGCA_028885625.2 + parent mafNetGCA_028885625.2Viewnet + subGroups view=net + shortLabel Bornean orangutan synNet + longLabel Bornean orangutan (Jan. 2024 GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028885625.2.synNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028885625.2.synNet.summary.bb + speciesOrder GCA_028885625.2 + speciesLabels GCA_028885625.2="Bornean orangutan" + + track rbestNetGCA_028885625.2 + parent mafNetGCA_028885625.2Viewnet + subGroups view=net + shortLabel Bornean orangutan rBestNet + longLabel Bornean orangutan (Jan. 2024 GCA_028885625.2_NHGRI_mPonPyg2-v2.0_pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028885625.2.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028885625.2.rbestNet.summary.bb + speciesOrder GCA_028885625.2 + speciesLabels GCA_028885625.2="Bornean orangutan" + + +############################################################################## +# GCA_028885655.2 - Sumatran orangutan - Pongo abelii - taxId: 9601 - primates +############################################################################## +track chainNetGCA_028885655.2 +compositeTrack on +shortLabel Sumatran orangutan Chain/Net +longLabel Sumatran orangutan (Jan. 2024 GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 497 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCA_028885655.2 +html chainNet + + track chainNetGCA_028885655.2Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCA_028885655.2 + spectrum on + + track chainGCA_028885655.2 + parent chainNetGCA_028885655.2Viewchain + subGroups view=chain + shortLabel Sumatran orangutan Chain + longLabel Sumatran orangutan (Jan. 2024 GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri) Chained Alignments + type bigChain GCA_028885655.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCA_028885655.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCA_028885655.2Link.bb + + track chainSynGCA_028885655.2 + parent chainNetGCA_028885655.2Viewchain + subGroups view=chain + shortLabel Sumatran orangutan synChain + longLabel Sumatran orangutan (Jan. 2024 GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri) Syntenic Chained Alignments + type bigChain GCA_028885655.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028885655.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028885655.2Link.bb + + track chainRBestGCA_028885655.2 + parent chainNetGCA_028885655.2Viewchain + subGroups view=chain + shortLabel Sumatran orangutan rBestChain + longLabel Sumatran orangutan (Jan. 2024 GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri) Reciprocal Best Chained Alignments + type bigChain GCA_028885655.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028885655.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028885655.2Link.bb + + track mafNetGCA_028885655.2Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCA_028885655.2 + + track netGCA_028885655.2 + parent mafNetGCA_028885655.2Viewnet + subGroups view=net + shortLabel Sumatran orangutan mafNet + longLabel Sumatran orangutan (Jan. 2024 GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028885655.2.net.bb + summary /gbdb/$D/chainNet/$D.GCA_028885655.2.net.summary.bb + speciesOrder GCA_028885655.2 + speciesLabels GCA_028885655.2="Sumatran orangutan" + + track synNetGCA_028885655.2 + parent mafNetGCA_028885655.2Viewnet + subGroups view=net + shortLabel Sumatran orangutan synNet + longLabel Sumatran orangutan (Jan. 2024 GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028885655.2.synNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028885655.2.synNet.summary.bb + speciesOrder GCA_028885655.2 + speciesLabels GCA_028885655.2="Sumatran orangutan" + + track rbestNetGCA_028885655.2 + parent mafNetGCA_028885655.2Viewnet + subGroups view=net + shortLabel Sumatran orangutan rBestNet + longLabel Sumatran orangutan (Jan. 2024 GCA_028885655.2_NHGRI_mPonAbe1-v2.0_pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028885655.2.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028885655.2.rbestNet.summary.bb + speciesOrder GCA_028885655.2 + speciesLabels GCA_028885655.2="Sumatran orangutan" + + ################################################################ # ponAbe3 - Bonobo - Pongo pygmaeus abelii - primate - taxId 9601 ################################################################ track chainNetPonAbe3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb ponAbe3 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetPonAbe3Viewchain shortLabel Chain view chain visibility pack parent chainNetPonAbe3 spectrum on track chainPonAbe3 parent chainNetPonAbe3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain ponAbe3 html chainNet track chainNetPonAbe3Viewnet shortLabel Net view net visibility full parent chainNetPonAbe3 track netPonAbe3 parent chainNetPonAbe3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign ponAbe3 chainPonAbe3 html chainNet ################################################################ # ponAbe2 - Bonobo - Pongo pygmaeus abelii - primate - taxId 9601 ################################################################ track chainNetPonAbe2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb ponAbe2 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetPonAbe2Viewchain shortLabel Chain view chain visibility pack parent chainNetPonAbe2 spectrum on track chainPonAbe2 parent chainNetPonAbe2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain ponAbe2 html chainNet track chainNetPonAbe2Viewnet shortLabel Net view net visibility full parent chainNetPonAbe2 track netPonAbe2 parent chainNetPonAbe2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign ponAbe2 chainPonAbe2 html chainNet ################################################################ # saiBol1 - Squirrel monkey - Saimiri boliviensis - primate - primate - 395 ################################################################ track chainNetSaiBol1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 205.3 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 100,-179,-37,-144,-179,96,-195,-37,-37,-195,96,-179,-144,-37,-179,100 matrixHeader A, C, G, T otherDb saiBol1 chainMinScore 5000 chainLinearGap medium spectrum on html chainNet track chainNetSaiBol1Viewchain shortLabel Chain view chain visibility pack parent chainNetSaiBol1 spectrum on track chainSaiBol1 parent chainNetSaiBol1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain saiBol1 html chainNet track chainNetSaiBol1Viewnet shortLabel Net view net visibility dense parent chainNetSaiBol1 track netSaiBol1 parent chainNetSaiBol1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign saiBol1 chainSaiBol1 html chainNet ################################################################ # panPan3 - Bonobo - Pan paniscus - primate - GCF_013052645.1 Mhudiblu_PPA_v0 ################################################################ track chainNetPanPan3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 215.30 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panPan3 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetPanPan3Viewchain shortLabel Chain view chain visibility pack parent chainNetPanPan3 spectrum on track chainPanPan3 parent chainNetPanPan3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panPan3 html chainNet track chainNetPanPan3Viewnet shortLabel Net view net visibility dense parent chainNetPanPan3 track netPanPan3 parent chainNetPanPan3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign panPan3 chainPanPan3 html chainNet ################################################################ # panPan2 - Bonobo - Pan paniscus - primate - primate - 245 ################################################################ track chainNetPanPan2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 215.30 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panPan2 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetPanPan2Viewchain shortLabel Chain view chain visibility pack parent chainNetPanPan2 spectrum on track chainPanPan2 parent chainNetPanPan2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panPan2 html chainNet track chainNetPanPan2Viewnet shortLabel Net view net visibility dense parent chainNetPanPan2 track netPanPan2 parent chainNetPanPan2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign panPan2 chainPanPan2 html chainNet ################################################################ # panPan1 - Bonobo - Pan paniscus - primate - primate - 245 ################################################################ track chainNetPanPan1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 215.30 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb panPan1 chainMinScore 5000 chainLinearGap medium spectrum on html chainNet track chainNetPanPan1Viewchain shortLabel Chain view chain visibility pack parent chainNetPanPan1 spectrum on track chainPanPan1 parent chainNetPanPan1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain panPan1 html chainNet track chainNetPanPan1Viewnet shortLabel Net view net visibility dense parent chainNetPanPan1 track netPanPan1 parent chainNetPanPan1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign panPan1 chainPanPan1 html chainNet ################################################################ # chlSab2 - Green monkey - Chlorocebus sabaeus - primate - primate - 340 ################################################################ track chainNetChlSab2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 237.80 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb chlSab2 chainMinScore 5000 chainLinearGap medium spectrum on html chainNet track chainNetChlSab2Viewchain shortLabel Chain view chain visibility pack parent chainNetChlSab2 spectrum on track chainChlSab2 parent chainNetChlSab2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain chlSab2 html chainNet track chainNetChlSab2Viewnet shortLabel Net view net visibility dense parent chainNetChlSab2 track netChlSab2 parent chainNetChlSab2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign chlSab2 chainChlSab2 html chainNet ################################################################ # chlSab1 - Green monkey - Chlorocebus sabaeus - primate - primate - 340 ################################################################ track chainNetChlSab1 release alpha compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 237.80 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb chlSab1 chainMinScore 5000 chainLinearGap medium spectrum on html chainNet track chainNetChlSab1Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetChlSab1 spectrum on track chainChlSab1 release alpha parent chainNetChlSab1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain chlSab1 html chainNet track chainNetChlSab1Viewnet release alpha shortLabel Net view net visibility dense parent chainNetChlSab1 track netChlSab1 release alpha parent chainNetChlSab1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign chlSab1 chainChlSab1 html chainNet ################################################################ # nasLar1 - Proboscis monkey - Nasalis larvatus - primate - primate - 392 ################################################################ track chainNetNasLar1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 237.80 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 100,-177,-41,-145,-177,94,-181,-41,-41,-181,94,-177,-145,-41,-177,100 matrixHeader A, C, G, T otherDb nasLar1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetNasLar1Viewchain shortLabel Chain view chain visibility pack parent chainNetNasLar1 spectrum on track chainNasLar1 parent chainNetNasLar1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain nasLar1 html chainNet track chainNetNasLar1Viewnet shortLabel Net view net visibility dense parent chainNetNasLar1 track netNasLar1 parent chainNetNasLar1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign nasLar1 chainNasLar1 html chainNet ################################################################ # rhiBie1 - Black snub-nosed monkey - Rhinopithecus bieti - primate - 61621 ################################################################ track chainNetRhiBie1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 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 rhiBie1 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetRhiBie1Viewchain shortLabel Chain view chain visibility pack parent chainNetRhiBie1 spectrum on track chainRhiBie1 parent chainNetRhiBie1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain rhiBie1 html chainNet track chainNetRhiBie1Viewnet shortLabel Net view net visibility full parent chainNetRhiBie1 track netRhiBie1 parent chainNetRhiBie1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign rhiBie1 chainRhiBie1 html chainNet ################################################################ # rhiRox1 - Proboscis monkey - Nasalis larvatus - primate - primate - 7608 ################################################################ track chainNetRhiRox1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 237.80 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 100,-174,-41,-145,-174,94,-179,-41,-41,-179,94,-174,-145,-41,-174,100 matrixHeader A, C, G, T otherDb rhiRox1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetRhiRox1Viewchain shortLabel Chain view chain visibility pack parent chainNetRhiRox1 spectrum on track chainRhiRox1 parent chainNetRhiRox1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain rhiRox1 html chainNet track chainNetRhiRox1Viewnet shortLabel Net view net visibility dense parent chainNetRhiRox1 track netRhiRox1 parent chainNetRhiRox1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign rhiRox1 chainRhiRox1 html chainNet ################################################################ # papAnu2 - Baboon - Papio anubis - primate - primate - 2050 ################################################################ track chainNetPapAnu2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 240.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 100,-173,-45,-144,-173,92,-175,-45,-45,-175,92,-173,-144,-45,-173,100 matrixHeader A, C, G, T otherDb papAnu2 chainMinScore 3000 chainLinearGap medium html chainNet track chainNetPapAnu2Viewchain shortLabel Chain view chain visibility pack parent chainNetPapAnu2 spectrum on track chainPapAnu2 parent chainNetPapAnu2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain papAnu2 html chainNet track chainNetPapAnu2Viewnet shortLabel Net view net visibility full parent chainNetPapAnu2 track netPapAnu2 parent chainNetPapAnu2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign papAnu2 chainPapAnu2 html chainNet ################################################################ # macFas5 - Crab-eating macaque - Macaca fascicularis - primate - primate - 380 ################################################################ track chainNetMacFas5 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 245.30 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb macFas5 chainMinScore 5000 chainLinearGap medium spectrum on html chainNet track chainNetMacFas5Viewchain shortLabel Chain view chain visibility pack parent chainNetMacFas5 spectrum on track chainMacFas5 parent chainNetMacFas5Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain macFas5 html chainNet track chainNetMacFas5Viewnet shortLabel Net view net visibility dense parent chainNetMacFas5 track netMacFas5 parent chainNetMacFas5Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign macFas5 chainMacFas5 html chainNet ################################################################ # colAng1 - Angolan colobus - Colobus angolensis palliatus - primate - 336983 ################################################################ track chainNetColAng1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb colAng1 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetColAng1Viewchain shortLabel Chain view chain visibility pack parent chainNetColAng1 spectrum on track chainColAng1 parent chainNetColAng1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain colAng1 html chainNet track chainNetColAng1Viewnet shortLabel Net view net visibility full parent chainNetColAng1 track netColAng1 parent chainNetColAng1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign colAng1 chainColAng1 html chainNet ############################################################################## # aotNan1 - Ma's night monkey - Aotus nancymaae - taxId: 37293 ############################################################################## track chainNetAotNan1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 241.97 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb aotNan1 html chainNet track chainNetAotNan1Viewchain shortLabel Chain view chain visibility pack parent chainNetAotNan1 spectrum on track chainAotNan1 parent chainNetAotNan1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain aotNan1 html chainNet track chainNetAotNan1Viewnet shortLabel Net view net visibility full parent chainNetAotNan1 track netAotNan1 parent chainNetAotNan1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign aotNan1 chainAotNan1 html chainNet ############################################################################## # cebCap1 - White-faced sapajou - Cebus capucinus imitator - taxId: 1737458 ############################################################################## track chainNetCebCap1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 243.64 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb cebCap1 html chainNet track chainNetCebCap1Viewchain shortLabel Chain view chain visibility pack parent chainNetCebCap1 spectrum on track chainCebCap1 parent chainNetCebCap1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain cebCap1 html chainNet track chainNetCebCap1Viewnet shortLabel Net view net visibility full parent chainNetCebCap1 track netCebCap1 parent chainNetCebCap1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign cebCap1 chainCebCap1 html chainNet ############################################################################## # cerAty1 - Sooty mangabey - Cercocebus atys - taxId: 9531 ############################################################################## track chainNetCerAty1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 238.90 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb cerAty1 html chainNet track chainNetCerAty1Viewchain shortLabel Chain view chain visibility pack parent chainNetCerAty1 spectrum on track chainCerAty1 parent chainNetCerAty1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain cerAty1 html chainNet track chainNetCerAty1Viewnet shortLabel Net view net visibility full parent chainNetCerAty1 track netCerAty1 parent chainNetCerAty1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign cerAty1 chainCerAty1 html chainNet ############################################################################## # eulFla1 - Sclater's lemur - Eulemur flavifrons - taxId: 87288 ############################################################################## track chainNetEulFla1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 272.80 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb eulFla1 html chainNet track chainNetEulFla1Viewchain shortLabel Chain view chain visibility pack parent chainNetEulFla1 spectrum on track chainEulFla1 parent chainNetEulFla1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain eulFla1 html chainNet track chainNetEulFla1Viewnet shortLabel Net view net visibility full parent chainNetEulFla1 track netEulFla1 parent chainNetEulFla1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign eulFla1 chainEulFla1 html chainNet ############################################################################## # eulMac1 - Black lemur - Eulemur macaco - taxId: 30602 ############################################################################## track chainNetEulMac1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 275.30 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb eulMac1 html chainNet track chainNetEulMac1Viewchain shortLabel Chain view chain visibility pack parent chainNetEulMac1 spectrum on track chainEulMac1 parent chainNetEulMac1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain eulMac1 html chainNet track chainNetEulMac1Viewnet shortLabel Net view net visibility full parent chainNetEulMac1 track netEulMac1 parent chainNetEulMac1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign eulMac1 chainEulMac1 html chainNet ############################################################################## # manLeu1 - Drill - Mandrillus leucophaeus - taxId: 9568 ############################################################################## track chainNetManLeu1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 237.55 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb manLeu1 html chainNet track chainNetManLeu1Viewchain shortLabel Chain view chain visibility pack parent chainNetManLeu1 spectrum on track chainManLeu1 parent chainNetManLeu1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain manLeu1 html chainNet track chainNetManLeu1Viewnet shortLabel Net view net visibility full parent chainNetManLeu1 track netManLeu1 parent chainNetManLeu1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign manLeu1 chainManLeu1 html chainNet ############################################################################## # papAnu3 - Baboon - Papio anubis - taxId: 9555 ############################################################################## track chainNetPapAnu3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 238.45 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 chainMinScore 3000 chainLinearGap medium matrixHeader A, C, G, T otherDb papAnu3 html chainNet track chainNetPapAnu3Viewchain shortLabel Chain view chain visibility pack parent chainNetPapAnu3 spectrum on track chainPapAnu3 parent chainNetPapAnu3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain papAnu3 html chainNet track chainNetPapAnu3Viewnet shortLabel Net view net visibility full parent chainNetPapAnu3 track netPapAnu3 parent chainNetPapAnu3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign papAnu3 chainPapAnu3 html chainNet ############################################################################## # proCoq1 - Coquerel's sifaka - Propithecus coquereli - taxId: 379532 ############################################################################## track chainNetProCoq1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 277.80 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb proCoq1 html chainNet track chainNetProCoq1Viewchain shortLabel Chain view chain visibility pack parent chainNetProCoq1 spectrum on track chainProCoq1 parent chainNetProCoq1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain proCoq1 html chainNet track chainNetProCoq1Viewnet shortLabel Net view net visibility full parent chainNetProCoq1 track netProCoq1 parent chainNetProCoq1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign proCoq1 chainProCoq1 html chainNet +############################################################################## +# GCA_028878055.2 - siamang - Symphalangus syndactylus - taxId: 9590 - primates +############################################################################## +track chainNetGCA_028878055.2 +compositeTrack on +shortLabel siamang Chain/Net +longLabel siamang (Jan. 2024 GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 260.0 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCA_028878055.2 +html chainNet + + track chainNetGCA_028878055.2Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCA_028878055.2 + spectrum on + + track chainGCA_028878055.2 + parent chainNetGCA_028878055.2Viewchain + subGroups view=chain + shortLabel siamang Chain + longLabel siamang (Jan. 2024 GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri) Chained Alignments + type bigChain GCA_028878055.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCA_028878055.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCA_028878055.2Link.bb + + track chainSynGCA_028878055.2 + parent chainNetGCA_028878055.2Viewchain + subGroups view=chain + shortLabel siamang synChain + longLabel siamang (Jan. 2024 GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri) Syntenic Chained Alignments + type bigChain GCA_028878055.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028878055.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_028878055.2Link.bb + + track chainRBestGCA_028878055.2 + parent chainNetGCA_028878055.2Viewchain + subGroups view=chain + shortLabel siamang rBestChain + longLabel siamang (Jan. 2024 GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri) Reciprocal Best Chained Alignments + type bigChain GCA_028878055.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028878055.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_028878055.2Link.bb + + track mafNetGCA_028878055.2Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCA_028878055.2 + + track netGCA_028878055.2 + parent mafNetGCA_028878055.2Viewnet + subGroups view=net + shortLabel siamang mafNet + longLabel siamang (Jan. 2024 GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028878055.2.net.bb + summary /gbdb/$D/chainNet/$D.GCA_028878055.2.net.summary.bb + speciesOrder GCA_028878055.2 + speciesLabels GCA_028878055.2="siamang" + + track synNetGCA_028878055.2 + parent mafNetGCA_028878055.2Viewnet + subGroups view=net + shortLabel siamang synNet + longLabel siamang (Jan. 2024 GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028878055.2.synNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028878055.2.synNet.summary.bb + speciesOrder GCA_028878055.2 + speciesLabels GCA_028878055.2="siamang" + + track rbestNetGCA_028878055.2 + parent mafNetGCA_028878055.2Viewnet + subGroups view=net + shortLabel siamang rBestNet + longLabel siamang (Jan. 2024 GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCA_028878055.2.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCA_028878055.2.rbestNet.summary.bb + speciesOrder GCA_028878055.2 + speciesLabels GCA_028878055.2="siamang" + + +############################################################################## +# GCF_020740605.2 - Ring-tailed lemur - Lemur catta - taxId: 9447 - primates +############################################################################## +track chainNetGCF_020740605.2 +compositeTrack on +shortLabel Ring-tailed lemur Chain/Net +longLabel Ring-tailed lemur (Nov. 2021 GCF_020740605.2_mLemCat1.pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 260.1 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCF_020740605.2 +html chainNet + + track chainNetGCF_020740605.2Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCF_020740605.2 + spectrum on + + track chainGCF_020740605.2 + parent chainNetGCF_020740605.2Viewchain + subGroups view=chain + shortLabel Ring-tailed lemur Chain + longLabel Ring-tailed lemur (Nov. 2021 GCF_020740605.2_mLemCat1.pri) Chained Alignments + type bigChain GCF_020740605.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCF_020740605.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCF_020740605.2Link.bb + + track chainSynGCF_020740605.2 + parent chainNetGCF_020740605.2Viewchain + subGroups view=chain + shortLabel Ring-tailed lemur synChain + longLabel Ring-tailed lemur (Nov. 2021 GCF_020740605.2_mLemCat1.pri) Syntenic Chained Alignments + type bigChain GCF_020740605.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_020740605.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_020740605.2Link.bb + + track chainRBestGCF_020740605.2 + parent chainNetGCF_020740605.2Viewchain + subGroups view=chain + shortLabel Ring-tailed lemur rBestChain + longLabel Ring-tailed lemur (Nov. 2021 GCF_020740605.2_mLemCat1.pri) Reciprocal Best Chained Alignments + type bigChain GCF_020740605.2 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_020740605.2.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_020740605.2Link.bb + + track mafNetGCF_020740605.2Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCF_020740605.2 + + track netGCF_020740605.2 + parent mafNetGCF_020740605.2Viewnet + subGroups view=net + shortLabel Ring-tailed lemur mafNet + longLabel Ring-tailed lemur (Nov. 2021 GCF_020740605.2_mLemCat1.pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_020740605.2.net.bb + summary /gbdb/$D/chainNet/$D.GCF_020740605.2.net.summary.bb + speciesOrder GCF_020740605.2 + speciesLabels GCF_020740605.2="Ring-tailed lemur" + + track synNetGCF_020740605.2 + parent mafNetGCF_020740605.2Viewnet + subGroups view=net + shortLabel Ring-tailed lemur synNet + longLabel Ring-tailed lemur (Nov. 2021 GCF_020740605.2_mLemCat1.pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_020740605.2.synNet.bb + summary /gbdb/$D/chainNet/$D.GCF_020740605.2.synNet.summary.bb + speciesOrder GCF_020740605.2 + speciesLabels GCF_020740605.2="Ring-tailed lemur" + + track rbestNetGCF_020740605.2 + parent mafNetGCF_020740605.2Viewnet + subGroups view=net + shortLabel Ring-tailed lemur rBestNet + longLabel Ring-tailed lemur (Nov. 2021 GCF_020740605.2_mLemCat1.pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_020740605.2.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCF_020740605.2.rbestNet.summary.bb + speciesOrder GCF_020740605.2 + speciesLabels GCF_020740605.2="Ring-tailed lemur" + + +############################################################################## +# GCF_011100555.1 - white-tufted-ear marmoset - Callithrix jacchus - taxId: 9483 - primates +############################################################################## +track chainNetGCF_011100555.1 +compositeTrack on +shortLabel white-tufted-ear marmoset Chain/Net +longLabel white-tufted-ear marmoset (Apr. 2021 GCF_011100555.1_mCalJa1.2.pat.X), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 260.1 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCF_011100555.1 +html chainNet + + track chainNetGCF_011100555.1Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCF_011100555.1 + spectrum on + + track chainGCF_011100555.1 + parent chainNetGCF_011100555.1Viewchain + subGroups view=chain + shortLabel white-tufted-ear marmoset Chain + longLabel white-tufted-ear marmoset (Apr. 2021 GCF_011100555.1_mCalJa1.2.pat.X) Chained Alignments + type bigChain GCF_011100555.1 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCF_011100555.1.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCF_011100555.1Link.bb + + track chainSynGCF_011100555.1 + parent chainNetGCF_011100555.1Viewchain + subGroups view=chain + shortLabel white-tufted-ear marmoset synChain + longLabel white-tufted-ear marmoset (Apr. 2021 GCF_011100555.1_mCalJa1.2.pat.X) Syntenic Chained Alignments + type bigChain GCF_011100555.1 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_011100555.1.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_011100555.1Link.bb + + track chainRBestGCF_011100555.1 + parent chainNetGCF_011100555.1Viewchain + subGroups view=chain + shortLabel white-tufted-ear marmoset rBestChain + longLabel white-tufted-ear marmoset (Apr. 2021 GCF_011100555.1_mCalJa1.2.pat.X) Reciprocal Best Chained Alignments + type bigChain GCF_011100555.1 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_011100555.1.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_011100555.1Link.bb + + track mafNetGCF_011100555.1Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCF_011100555.1 + + track netGCF_011100555.1 + parent mafNetGCF_011100555.1Viewnet + subGroups view=net + shortLabel white-tufted-ear marmoset mafNet + longLabel white-tufted-ear marmoset (Apr. 2021 GCF_011100555.1_mCalJa1.2.pat.X) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_011100555.1.net.bb + summary /gbdb/$D/chainNet/$D.GCF_011100555.1.net.summary.bb + speciesOrder GCF_011100555.1 + speciesLabels GCF_011100555.1="white-tufted-ear marmoset" + + track synNetGCF_011100555.1 + parent mafNetGCF_011100555.1Viewnet + subGroups view=net + shortLabel white-tufted-ear marmoset synNet + longLabel white-tufted-ear marmoset (Apr. 2021 GCF_011100555.1_mCalJa1.2.pat.X) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_011100555.1.synNet.bb + summary /gbdb/$D/chainNet/$D.GCF_011100555.1.synNet.summary.bb + speciesOrder GCF_011100555.1 + speciesLabels GCF_011100555.1="white-tufted-ear marmoset" + + track rbestNetGCF_011100555.1 + parent mafNetGCF_011100555.1Viewnet + subGroups view=net + shortLabel white-tufted-ear marmoset rBestNet + longLabel white-tufted-ear marmoset (Apr. 2021 GCF_011100555.1_mCalJa1.2.pat.X) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_011100555.1.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCF_011100555.1.rbestNet.summary.bb + speciesOrder GCF_011100555.1 + speciesLabels GCF_011100555.1="white-tufted-ear marmoset" + + +############################################################################## +# GCF_027406575.1 - slow loris - Nycticebus coucang - taxId: 9470 - primates +############################################################################## +track chainNetGCF_027406575.1 +compositeTrack on +shortLabel slow loris Chain/Net +longLabel slow loris (Dec. 2022 GCF_027406575.1_mNycCou1.pri), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 260.2 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 +chainMinScore 5000 +chainLinearGap medium +matrixHeader A, C, G, T +otherDb GCF_027406575.1 +html chainNet + + track chainNetGCF_027406575.1Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetGCF_027406575.1 + spectrum on + + track chainGCF_027406575.1 + parent chainNetGCF_027406575.1Viewchain + subGroups view=chain + shortLabel slow loris Chain + longLabel slow loris (Dec. 2022 GCF_027406575.1_mNycCou1.pri) Chained Alignments + type bigChain GCF_027406575.1 + bigDataUrl /gbdb/$D/chainNet/$D.chainGCF_027406575.1.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainGCF_027406575.1Link.bb + + track chainSynGCF_027406575.1 + parent chainNetGCF_027406575.1Viewchain + subGroups view=chain + shortLabel slow loris synChain + longLabel slow loris (Dec. 2022 GCF_027406575.1_mNycCou1.pri) Syntenic Chained Alignments + type bigChain GCF_027406575.1 + bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_027406575.1.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_027406575.1Link.bb + + track chainRBestGCF_027406575.1 + parent chainNetGCF_027406575.1Viewchain + subGroups view=chain + shortLabel slow loris rBestChain + longLabel slow loris (Dec. 2022 GCF_027406575.1_mNycCou1.pri) Reciprocal Best Chained Alignments + type bigChain GCF_027406575.1 + bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_027406575.1.bb + linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_027406575.1Link.bb + + track mafNetGCF_027406575.1Viewnet + shortLabel Net + view net + visibility full + parent chainNetGCF_027406575.1 + + track netGCF_027406575.1 + parent mafNetGCF_027406575.1Viewnet + subGroups view=net + shortLabel slow loris mafNet + longLabel slow loris (Dec. 2022 GCF_027406575.1_mNycCou1.pri) mafNet Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_027406575.1.net.bb + summary /gbdb/$D/chainNet/$D.GCF_027406575.1.net.summary.bb + speciesOrder GCF_027406575.1 + speciesLabels GCF_027406575.1="slow loris" + + track synNetGCF_027406575.1 + parent mafNetGCF_027406575.1Viewnet + subGroups view=net + shortLabel slow loris synNet + longLabel slow loris (Dec. 2022 GCF_027406575.1_mNycCou1.pri) Syntenic Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_027406575.1.synNet.bb + summary /gbdb/$D/chainNet/$D.GCF_027406575.1.synNet.summary.bb + speciesOrder GCF_027406575.1 + speciesLabels GCF_027406575.1="slow loris" + + track rbestNetGCF_027406575.1 + parent mafNetGCF_027406575.1Viewnet + subGroups view=net + shortLabel slow loris rBestNet + longLabel slow loris (Dec. 2022 GCF_027406575.1_mNycCou1.pri) Reciprocal Best Net Alignment + type bigMaf + bigDataUrl /gbdb/$D/chainNet/$D.GCF_027406575.1.rbestNet.bb + summary /gbdb/$D/chainNet/$D.GCF_027406575.1.rbestNet.summary.bb + speciesOrder GCF_027406575.1 + speciesLabels GCF_027406575.1="slow loris" + + ################################################################ # calJac4 - marmoset - Callithrix jacchus - primate - taxId 9483 ################################################################ track chainNetCalJac4 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 260.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb calJac4 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetCalJac4Viewchain shortLabel Chain view chain visibility pack parent chainNetCalJac4 spectrum on track chainCalJac4 parent chainNetCalJac4Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain calJac4 html chainNet track chainNetCalJac4Viewnet shortLabel Net view net visibility full parent chainNetCalJac4 track netCalJac4 parent chainNetCalJac4Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign calJac4 chainCalJac4 html chainNet ################################################################ # calJac3 - marmoset - Callithrix jacchus - primate - taxId 9483 ################################################################ track chainNetCalJac3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 260.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 matrixHeader A, C, G, T otherDb calJac3 chainMinScore 5000 chainLinearGap medium html chainNet track chainNetCalJac3Viewchain shortLabel Chain view chain visibility pack parent chainNetCalJac3 spectrum on track chainCalJac3 parent chainNetCalJac3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain calJac3 html chainNet track chainNetCalJac3Viewnet shortLabel Net view net visibility full parent chainNetCalJac3 track netCalJac3 parent chainNetCalJac3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign calJac3 chainCalJac3 html chainNet ################################################################ # calJac1 - marmoset - Callithrix jacchus - primate - taxId 9483 ################################################################ track chainNetCalJac1 compositeTrack on shortLabel $o_db Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 498 color 0,0,0 altColor 100,50,0 type bed 3 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 chainNetCalJac1Viewchain shortLabel Chain view chain visibility pack parent chainNetCalJac1 spectrum on track chainCalJac1 parent chainNetCalJac1Viewchain subGroups view=chain shortLabel $o_db Chain longLabel $o_Organism ($o_date) Chained Alignments type chain calJac1 html chainNet track chainNetCalJac1Viewnet shortLabel Net view net visibility full parent chainNetCalJac1 track netCalJac1 parent chainNetCalJac1Viewnet subGroups view=net shortLabel $o_db Net longLabel $o_Organism ($o_date) Alignment net type netAlign calJac1 chainCalJac1 html chainNet ############################################################################## # GCA_011100615.1 - crab-eating macaque - Macaca fascicularis - taxId: 9541 - primates ############################################################################## track chainNetGCA_011100615.1 compositeTrack on shortLabel crab-eating macaque Chain/Net longLabel crab-eating macaque (Mar. 2020 GCA_011100615.1_Macaca_fascicularis_6.0), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 100.1 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 90,-330,-236,-356,-330,100,-318,-236,-236,-318,100,-330,-356,-236,-330,90 chainMinScore 5000 chainLinearGap medium matrixHeader A, C, G, T otherDb GCA_011100615.1 html chainNet track chainNetGCA_011100615.1Viewchain shortLabel Chain view chain visibility pack parent chainNetGCA_011100615.1 spectrum on track chainGCA_011100615.1 parent chainNetGCA_011100615.1Viewchain subGroups view=chain shortLabel crab-eating macaque Chain longLabel crab-eating macaque (Mar. 2020 GCA_011100615.1_Macaca_fascicularis_6.0) Chained Alignments type bigChain GCA_011100615.1 bigDataUrl /gbdb/$D/chainNet/$D.chainGCA_011100615.1.bb linkDataUrl /gbdb/$D/chainNet/$D.chainGCA_011100615.1Link.bb track chainSynGCA_011100615.1 parent chainNetGCA_011100615.1Viewchain subGroups view=chain shortLabel crab-eating macaque synChain longLabel crab-eating macaque (Mar. 2020 GCA_011100615.1_Macaca_fascicularis_6.0) Syntenic Chained Alignments type bigChain GCA_011100615.1 bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_011100615.1.bb linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCA_011100615.1Link.bb track chainRBestGCA_011100615.1 parent chainNetGCA_011100615.1Viewchain subGroups view=chain shortLabel crab-eating macaque rBestChain longLabel crab-eating macaque (Mar. 2020 GCA_011100615.1_Macaca_fascicularis_6.0) Reciprocal Best Chained Alignments type bigChain GCA_011100615.1 bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_011100615.1.bb linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCA_011100615.1Link.bb track mafNetGCA_011100615.1Viewnet shortLabel Net view net visibility full parent chainNetGCA_011100615.1 track netGCA_011100615.1 parent mafNetGCA_011100615.1Viewnet subGroups view=net shortLabel crab-eating macaque mafNet longLabel crab-eating macaque (Mar. 2020 GCA_011100615.1_Macaca_fascicularis_6.0) mafNet Alignment type bigMaf bigDataUrl /gbdb/$D/chainNet/$D.GCA_011100615.1.net.bb summary /gbdb/$D/chainNet/$D.GCA_011100615.1.net.summary.bb speciesOrder GCA_011100615.1 speciesLabels GCA_011100615.1="crab-eating macaque" track synNetGCA_011100615.1 parent mafNetGCA_011100615.1Viewnet subGroups view=net shortLabel crab-eating macaque synNet longLabel crab-eating macaque (Mar. 2020 GCA_011100615.1_Macaca_fascicularis_6.0) Syntenic Net Alignment type bigMaf bigDataUrl /gbdb/$D/chainNet/$D.GCA_011100615.1.synNet.bb summary /gbdb/$D/chainNet/$D.GCA_011100615.1.synNet.summary.bb speciesOrder GCA_011100615.1 speciesLabels GCA_011100615.1="crab-eating macaque" track rbestNetGCA_011100615.1 parent mafNetGCA_011100615.1Viewnet subGroups view=net shortLabel crab-eating macaque rBestNet longLabel crab-eating macaque (Mar. 2020 GCA_011100615.1_Macaca_fascicularis_6.0) Reciprocal Best Net Alignment type bigMaf bigDataUrl /gbdb/$D/chainNet/$D.GCA_011100615.1.rbestNet.bb summary /gbdb/$D/chainNet/$D.GCA_011100615.1.rbestNet.summary.bb speciesOrder GCA_011100615.1 speciesLabels GCA_011100615.1="crab-eating macaque"