Schema for Dog Net - Dog (May 2005 (Broad/canFam2)) Alignment Net
Database: hg19    Primary Table: netCanFam2    Row Count: 4,604,629
Format description: Database representation of a net of alignments.
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
level 1int(10) unsigned Level of alignment
tName chr1varchar(255) Target chromosome
tStart 11491int(10) unsigned Start on target
tEnd 38258int(10) unsigned End on target
strand +char(1) Orientation of query. + or -
qName chr27varchar(255) Query chromosome
qStart 45128907int(10) unsigned Start on query
qEnd 45159085int(10) unsigned End on query
chainId 1021int(10) unsigned Associated chain Id with alignment details
ali 20071int(10) unsigned Bases in gap-free alignments
score 713101double Score - a number proportional to 100x matching bases
qOver -1int(11) Overlap with parent gap on query side. -1 for undefined
qFar -1int(11) Distance from parent gap on query side. -1 for undefined
qDup 26780int(11) Bases with two or more copies in query. -1 for undefined
type topvarchar(255) Syntenic type: gap/top/syn/nonsyn/inv
tN 0int(11) Unsequenced bases on target. -1 for undefined
qN 0int(11) Unsequenced bases on query. -1 for undefined
tR 7326int(11) RepeatMasker bases on target. -1 for undefined
qR 8222int(11) RepeatMasker bases on query. -1 for undefined
tNewR -1int(11) Lineage specific repeats on target. -1 for undefined
qNewR -1int(11) Lineage specific repeats on query. -1 for undefined
tOldR -1int(11) Bases of ancient repeats on target. -1 for undefined
qOldR -1int(11) Bases of ancient repeats on query. -1 for undefined
tTrf 270int(11) Bases of tandem repeats on target. -1 for undefined
qTrf 92int(11) Bases of tandem repeats on query. -1 for undefined
Connected Tables and Joining Fields
      hg19.chainCanFam2.id (via netCanFam2.chainId)
      hg19.chainCanFam2Link.chainId (via netCanFam2.chainId)
Sample Rows
binleveltNametStarttEndstrandqNameqStartqEndchainIdaliscoreqOverqFarqDuptypetNqNtRqRtNewRqNewRtOldRqOldRtTrfqTrf
5851chr11149138258+chr274512890745159085102120071713101-1-126780top0073268222-1-1-1-127092
5852chr11187811903+chr274512939045129390000-1-1-1gap0000-1-1-1-100
5852chr11231812329+chr274513150245131502000-1-1-1gap0000-1-1-1-100
5852chr11237112383+chr274513154245131542000-1-1-1gap0000-1-1-1-100
5852chr11284612856+chr274513209645132096000-1-1-1gap0000-1-1-1-100
5852chr11311713150+chr274513236945132369000-1-1-1gap0000-1-1-1-100
5852chr11445414472+chr274513381645133816000-1-1-1gap0000-1-1-1-100
5852chr11448214497+chr274513382645133826000-1-1-1gap0000-1-1-1-100
5852chr11456514575+chr274513390245133902000-1-1-1gap0000-1-1-1-100
5852chr11507215203+chr274513443845134505000-1-1-1gap0000-1-1-1-100

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.