Schema for all_est
  Database: canFam4    Primary Table: all_est    Row Count: 427,486   Data last updated: 2020-05-05
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 1450smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 390int(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 2int(10) unsigned range Number of inserts in query
qBaseInsert 3int(10) unsigned range Number of bases inserted in query
tNumInsert 5int(10) unsigned range Number of inserts in target
tBaseInsert 7642int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName AB042265varchar(255) values Query sequence name
qSize 393int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 393int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 123556469int(10) unsigned range Target sequence size
tStart 113419652int(10) unsigned range Alignment start position in target
tEnd 113427684int(10) unsigned range Alignment end position in target
blockCount 7int(10) unsigned range Number of blocks in alignment
blockSizes 14,29,54,78,148,52,15,longblob   Size of each block
qStarts 0,16,46,100,178,326,378,longblob   Start of each block in query.
tStarts 113419652,113419667,1134196...longblob   Start of each block in target.

Connected Tables and Joining Fields
        canFam4.all_mrna.qName (via all_est.qName)
      canFam4.estOrientInfo.name (via all_est.qName)
      canFam4.intronEst.qName (via all_est.qName)
      canFam4.refGene.name (via all_est.qName)
      canFam4.refSeqAli.qName (via all_est.qName)
      canFam4.xenoMrna.qName (via all_est.qName)
      canFam4.xenoRefGene.name (via all_est.qName)
      canFam4.xenoRefSeqAli.qName (via all_est.qName)
      hgFixed.gbCdnaInfo.acc (via all_est.qName)
      hgFixed.gbMiscDiff.acc (via all_est.qName)
      hgFixed.gbSeq.acc (via all_est.qName)
      hgFixed.gbWarn.acc (via all_est.qName)
      hgFixed.imageClone.acc (via all_est.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
14503900002357642+AB0422653930393chr1123556469113419652113427684714,29,54,78,148,52,15,0,16,46,100,178,326,378,113419652,113419667,113419696,113421406,113421669,113427616,113427669,
7242491000018043-AB0422642500250chr195551620118222825182311182179,71,0,179,18222825,18231047,
8203261017872004+AB0422664087343chr363122341530901648309039801436,18,45,54,45,46,7,20,7,11,5,18,9,7,7,44,62,107,161,206,254,261,282,290,301,307,326,336,30901648,30901684,30902129,30902295,30902804,30903449,30903496,30903902,30903922,30903929,30903941,30903946,30903964,30903973,
6985631000000+AJ5368995684568chr112355646914867182148677461564,4,14867182,
6985133000000-AJ53690053519535chr112355646914867917148684331516,0,14867917,
7152012000000+AJ53689327510213chr112355646917115077171152801203,10,17115077,
7474830000000+AJ5373774830483chr112355646921240997212414801483,0,21240997,
7781934002172118+AJ53737923319233chr1123556469253074682530778354,5,127,53,8,19,24,29,172,225,25307468,25307472,25307478,25307605,25307775,
7985702001112-AJ5369015980573chr112355646927937670279382442426,146,25,452,27937670,27938098,
856704300003575-AJ53690272920727chr11235564693560958935610871471,53,201,382,2,73,126,327,35609589,35609938,35610159,35610489,

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