Schema for kgTargetAli
  Database: hg17    Primary Table: kgTargetAli    Row Count: 39,368   Data last updated: 2008-11-04
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1345int(10) unsigned range Number of bases that match that aren't repeats
misMatches 0int(10) unsigned range Number of bases that don't match
repMatches 0int(10) unsigned range Number of bases that match but are part of repeats
nCount 0int(10) unsigned range Number of 'N' bases
qNumInsert 0int(10) unsigned range Number of inserts in query
qBaseInsert 0int(10) unsigned range Number of bases inserted in query
tNumInsert 5int(10) unsigned range Number of inserts in target
tBaseInsert 1825int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName BC073913varchar(255) values Query sequence name
qSize 1345int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1345int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 245522847int(10) unsigned range Target sequence size
tStart 4268int(10) unsigned range Alignment start position in target
tEnd 7438int(10) unsigned range Alignment end position in target
blockCount 6int(10) unsigned range Number of blocks in alignment
blockSizes 424,69,152,159,198,343,longblob   Size of each block
qStarts 0,424,493,645,804,1002,longblob   Start of each block in query.
tStarts 4268,4832,5658,6469,6720,7095,longblob   Start of each block in target.

Connected Tables and Joining Fields
        hg17.bioCycPathway.kgID (via kgTargetAli.qName)
      hg17.ccdsKgMap.geneId (via kgTargetAli.qName)
      hg17.ceBlastTab.query (via kgTargetAli.qName)
      hg17.dmBlastTab.query (via kgTargetAli.qName)
      hg17.drBlastTab.query (via kgTargetAli.qName)
      hg17.dupSpMrna.mrnaID (via kgTargetAli.qName)
      hg17.foldUtr3.name (via kgTargetAli.qName)
      hg17.foldUtr5.name (via kgTargetAli.qName)
      hg17.gladHumESDistance.query (via kgTargetAli.qName)
      hg17.gladHumESDistance.target (via kgTargetAli.qName)
      hg17.gnfAtlas2Distance.query (via kgTargetAli.qName)
      hg17.gnfAtlas2Distance.target (via kgTargetAli.qName)
      hg17.gnfU95Distance.query (via kgTargetAli.qName)
      hg17.gnfU95Distance.target (via kgTargetAli.qName)
      hg17.humanHprdP2P.query (via kgTargetAli.qName)
      hg17.humanHprdP2P.target (via kgTargetAli.qName)
      hg17.humanVidalP2P.query (via kgTargetAli.qName)
      hg17.humanVidalP2P.target (via kgTargetAli.qName)
      hg17.humanWankerP2P.query (via kgTargetAli.qName)
      hg17.humanWankerP2P.target (via kgTargetAli.qName)
      hg17.keggPathway.kgID (via kgTargetAli.qName)
      hg17.kgAlias.kgID (via kgTargetAli.qName)
      hg17.kgProtAlias.kgID (via kgTargetAli.qName)
      hg17.kgSpAlias.kgID (via kgTargetAli.qName)
      hg17.kgXref.kgID (via kgTargetAli.qName)
      hg17.knownBlastTab.query (via kgTargetAli.qName)
      hg17.knownBlastTab.target (via kgTargetAli.qName)
      hg17.knownCanonical.transcript (via kgTargetAli.qName)
      hg17.knownExpDistance.query (via kgTargetAli.qName)
      hg17.knownExpDistance.target (via kgTargetAli.qName)
      hg17.knownGene.name (via kgTargetAli.qName)
      hg17.knownGeneLink.name (via kgTargetAli.qName)
      hg17.knownGeneMrna.name (via kgTargetAli.qName)
      hg17.knownGenePep.name (via kgTargetAli.qName)
      hg17.knownIsoforms.transcript (via kgTargetAli.qName)
      hg17.knownToAllenBrain.name (via kgTargetAli.qName)
      hg17.knownToEnsembl.name (via kgTargetAli.qName)
      hg17.knownToGnf1h.name (via kgTargetAli.qName)
      hg17.knownToGnfAtlas2.name (via kgTargetAli.qName)
      hg17.knownToHInv.name (via kgTargetAli.qName)
      hg17.knownToHprd.name (via kgTargetAli.qName)
      hg17.knownToKeggEntrez.name (via kgTargetAli.qName)
      hg17.knownToLocusLink.name (via kgTargetAli.qName)
      hg17.knownToPfam.name (via kgTargetAli.qName)
      hg17.knownToRefSeq.name (via kgTargetAli.qName)
      hg17.knownToSuper.gene (via kgTargetAli.qName)
      hg17.knownToU133.name (via kgTargetAli.qName)
      hg17.knownToU133Plus2.name (via kgTargetAli.qName)
      hg17.knownToU95.name (via kgTargetAli.qName)
      hg17.knownToVisiGene.name (via kgTargetAli.qName)
      hg17.mmBlastTab.query (via kgTargetAli.qName)
      hg17.rankProp.query (via kgTargetAli.qName)
      hg17.rankProp.target (via kgTargetAli.qName)
      hg17.rnBlastTab.query (via kgTargetAli.qName)
      hg17.scBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.bioCycPathway.kgID (via kgTargetAli.qName)
      knownGeneV39.ceBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.dmBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.drBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.foldUtr3.name (via kgTargetAli.qName)
      knownGeneV39.foldUtr5.name (via kgTargetAli.qName)
      knownGeneV39.gnfAtlas2Distance.query (via kgTargetAli.qName)
      knownGeneV39.gnfAtlas2Distance.target (via kgTargetAli.qName)
      knownGeneV39.kgAlias.kgID (via kgTargetAli.qName)
      knownGeneV39.kgColor.kgID (via kgTargetAli.qName)
      knownGeneV39.kgProtAlias.kgID (via kgTargetAli.qName)
      knownGeneV39.kgSpAlias.kgID (via kgTargetAli.qName)
      knownGeneV39.kgTargetAli.qName (via kgTargetAli.qName)
      knownGeneV39.kgXref.kgID (via kgTargetAli.qName)
      knownGeneV39.knownAttrs.kgID (via kgTargetAli.qName)
      knownGeneV39.knownBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.knownBlastTab.target (via kgTargetAli.qName)
      knownGeneV39.knownCanonical.protein (via kgTargetAli.qName)
      knownGeneV39.knownCanonical.transcript (via kgTargetAli.qName)
      knownGeneV39.knownCds.name (via kgTargetAli.qName)
      knownGeneV39.knownGene.name (via kgTargetAli.qName)
      knownGeneV39.knownGeneMrna.name (via kgTargetAli.qName)
      knownGeneV39.knownGenePep.name (via kgTargetAli.qName)
      knownGeneV39.knownIsoforms.transcript (via kgTargetAli.qName)
      knownGeneV39.knownToEnsembl.name (via kgTargetAli.qName)
      knownGeneV39.knownToGnfAtlas2.name (via kgTargetAli.qName)
      knownGeneV39.knownToHprd.name (via kgTargetAli.qName)
      knownGeneV39.knownToLocusLink.name (via kgTargetAli.qName)
      knownGeneV39.knownToMrna.name (via kgTargetAli.qName)
      knownGeneV39.knownToMrnaSingle.name (via kgTargetAli.qName)
      knownGeneV39.knownToMupit.name (via kgTargetAli.qName)
      knownGeneV39.knownToPfam.name (via kgTargetAli.qName)
      knownGeneV39.knownToRefSeq.name (via kgTargetAli.qName)
      knownGeneV39.knownToSuper.gene (via kgTargetAli.qName)
      knownGeneV39.knownToTag.name (via kgTargetAli.qName)
      knownGeneV39.knownToU133.name (via kgTargetAli.qName)
      knownGeneV39.knownToU95.name (via kgTargetAli.qName)
      knownGeneV39.knownToVisiGene.name (via kgTargetAli.qName)
      knownGeneV39.knownToWikipedia.name (via kgTargetAli.qName)
      knownGeneV39.mmBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.rnBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.scBlastTab.query (via kgTargetAli.qName)
      knownGeneV39.ucscScop.ucscId (via kgTargetAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58513450000051825-BC073913134501345chr1245522847426874386424,69,152,159,198,343,0,424,493,645,804,1002,4268,4832,5658,6469,6720,7095,
5851187000002341-AF346307118701187chr124552284724416259443621,205,361,0,621,826,24416,25139,25583,
5859180000000+NM_0010054849180918chr124552284758953598711918,0,58953,
5889390000000+NM_0010052219390939chr12455228474075214084601939,0,407521,
5909390000000-NM_0010052219390939chr12455228476609586618971939,0,660958,
5911944000001520+AK097327194401944chr12455228477926137950772832,1112,0,832,792613,793965,
59113000000000-NM_024796130001300chr124552284780144980274911300,0,801449,
59134420000000-AK096928344203442chr124552284789281789625913442,0,892817,
7321200000096689+BC024295212002120chr124552284791128892009710131,90,138,163,116,79,500,125,111,667,0,131,221,359,522,638,717,1217,1342,1453,911288,914562,914797,916666,917658,917932,918081,918775,919220,919430,
7317330000063254+AK054643173301733chr12455228479147959197827188,163,116,79,500,125,562,0,188,351,467,546,1046,1171,914795,916666,917658,917932,918081,918775,919220,

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