102ab1cb5a7f8f8b1ed1197e69b204f340252501 hiram Tue Aug 18 08:58:37 2020 -0700 adding mm39 chainNet definition refs #22271 diff --git src/hg/makeDb/trackDb/trackDb.chainNet.euarchontoglires.ra src/hg/makeDb/trackDb/trackDb.chainNet.euarchontoglires.ra index 453af8a..50e762c 100644 --- src/hg/makeDb/trackDb/trackDb.chainNet.euarchontoglires.ra +++ src/hg/makeDb/trackDb/trackDb.chainNet.euarchontoglires.ra @@ -1,511 +1,565 @@ ############################################################################## +# mm39 - mouse - Mus musculus - taxId: 10090 +############################################################################## +track chainNetMm39 +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 370.3 +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 mm39 +chainMinScore 3000 +chainLinearGap medium +spectrum on +html chainNet + + track chainNetMm39Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetMm39 + spectrum on + + track chainMm39 + parent chainNetMm39Viewchain + subGroups view=chain + shortLabel $o_Organism Chain + longLabel $o_Organism ($o_date) Chained Alignments + type chain mm39 + html chainNet + + track chainNetMm39Viewnet + shortLabel Net + view net + visibility full + parent chainNetMm39 + + track netMm39 + parent chainNetMm39Viewnet + subGroups view=net + shortLabel $o_Organism Net + longLabel $o_Organism ($o_date) Alignment Net + type netAlign mm39 chainMm39 + html chainNet + +############################################################################## # fukDam1 - Damara mole rat - Fukomys damarensis - taxId: 885580 ############################################################################## track chainNetFukDam1 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 322.80 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 fukDam1 html chainNet track chainNetFukDam1Viewchain shortLabel Chain view chain visibility pack parent chainNetFukDam1 spectrum on track chainFukDam1 parent chainNetFukDam1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain fukDam1 html chainNet track chainNetFukDam1Viewnet shortLabel Net view net visibility full parent chainNetFukDam1 track netFukDam1 parent chainNetFukDam1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign fukDam1 chainFukDam1 html chainNet ################################################################ # chiLan1 - Chinchilla - Chinchilla lanigera - rodent - glires - 1700 ################################################################ track chainNetChiLan1 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 326.96 color 0,0,0 altColor 255,255,0 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 chiLan1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetChiLan1Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetChiLan1 spectrum on track chainChiLan1 release alpha parent chainNetChiLan1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain chiLan1 html chainNet track chainNetChiLan1Viewnet release alpha shortLabel Net view net visibility dense parent chainNetChiLan1 track netChiLan1 release alpha parent chainNetChiLan1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign chiLan1 chainChiLan1 html chainNet ############################################################################## # casCan1 - Beaver - Castor canadensis - taxId: 51338 ############################################################################## track chainNetCasCan1 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 353.63 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 casCan1 html chainNet track chainNetCasCan1Viewchain shortLabel Chain view chain visibility pack parent chainNetCasCan1 spectrum on track chainCasCan1 parent chainNetCasCan1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain casCan1 html chainNet track chainNetCasCan1Viewnet shortLabel Net view net visibility full parent chainNetCasCan1 track netCasCan1 parent chainNetCasCan1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign casCan1 chainCasCan1 html chainNet ############################################################################## # dipOrd2 - Kangaroo rat - Dipodomys ordii - taxId: 10020 ############################################################################## track chainNetDipOrd2 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 350.3 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 chainMinScore 3000 chainLinearGap medium matrixHeader A, C, G, T otherDb dipOrd2 html chainNet track chainNetDipOrd2Viewchain shortLabel Chain view chain visibility pack parent chainNetDipOrd2 spectrum on track chainDipOrd2 parent chainNetDipOrd2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain dipOrd2 html chainNet track chainNetDipOrd2Viewnet shortLabel Net view net visibility full parent chainNetDipOrd2 track netDipOrd2 parent chainNetDipOrd2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment net type netAlign dipOrd2 chainDipOrd2 html chainNet ################################################################ # jacJac1 - Lesser Egyptian jerboa - Jaculus jaculus - rodent - glires - 1590 ################################################################ track chainNetJacJac1 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 358.65 color 0,0,0 altColor 255,255,0 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 jacJac1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetJacJac1Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetJacJac1 spectrum on track chainJacJac1 release alpha parent chainNetJacJac1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain jacJac1 html chainNet track chainNetJacJac1Viewnet release alpha shortLabel Net view net visibility dense parent chainNetJacJac1 track netJacJac1 release alpha parent chainNetJacJac1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign jacJac1 chainJacJac1 html chainNet ################################################################ # mesAur1 - Golden hamster - Mesocricetus auratus - rodent - glires - 1620 ################################################################ track chainNetMesAur1 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 351.97 color 0,0,0 altColor 255,255,0 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 mesAur1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetMesAur1Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetMesAur1 spectrum on track chainMesAur1 release alpha parent chainNetMesAur1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain mesAur1 html chainNet track chainNetMesAur1Viewnet release alpha shortLabel Net view net visibility dense parent chainNetMesAur1 track netMesAur1 release alpha parent chainNetMesAur1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign mesAur1 chainMesAur1 html chainNet ################################################################ # micOch1 - Prairie vole - Microtus ochrogaster - rodent - glires - 1600 ################################################################ track chainNetMicOch1 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 355.31 color 0,0,0 altColor 255,255,0 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 micOch1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetMicOch1Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetMicOch1 spectrum on track chainMicOch1 release alpha parent chainNetMicOch1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain micOch1 html chainNet track chainNetMicOch1Viewnet release alpha shortLabel Net view net visibility dense parent chainNetMicOch1 track netMicOch1 release alpha parent chainNetMicOch1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign micOch1 chainMicOch1 html chainNet ################################################################ # ochPri3 - Pika - Ochotona princeps - rodent - glires - 1929 ################################################################ track chainNetOchPri3 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 310.3 color 0,0,0 altColor 255,255,0 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 ochPri3 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetOchPri3Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetOchPri3 spectrum on track chainOchPri3 release alpha parent chainNetOchPri3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain ochPri3 html chainNet track chainNetOchPri3Viewnet release alpha shortLabel Net view net visibility dense parent chainNetOchPri3 track netOchPri3 release alpha parent chainNetOchPri3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign ochPri3 chainOchPri3 html chainNet ################################################################ # octDeg1 - Brush-tailed rat - Octodon degus - rodent - glires - 1575 ################################################################ track chainNetOctDeg1 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 323.63 color 0,0,0 altColor 255,255,0 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 octDeg1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetOctDeg1Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetOctDeg1 spectrum on track chainOctDeg1 release alpha parent chainNetOctDeg1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain octDeg1 html chainNet track chainNetOctDeg1Viewnet release alpha shortLabel Net view net visibility dense parent chainNetOctDeg1 track netOctDeg1 release alpha parent chainNetOctDeg1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign octDeg1 chainOctDeg1 html chainNet