Schema for all_est
  Database: oryCun2    Primary Table: all_est    Row Count: 36,901   Data last updated: 2014-03-21
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 1856smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 194int(10) unsigned range Number of bases that match that aren't repeats
misMatches 2int(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 1int(10) unsigned range Number of inserts in target
tBaseInsert 1int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName AA875808varchar(255) values Query sequence name
qSize 202int(10) unsigned range Query sequence size
qStart 3int(10) unsigned range Alignment start position in query
qEnd 199int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 194850757int(10) unsigned range Target sequence size
tStart 166668226int(10) unsigned range Alignment start position in target
tEnd 166668423int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 114,82,longblob   Size of each block
qStarts 3,117,longblob   Start of each block in query.
tStarts 166668226,166668341,longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      oryCun2.all_mrna.qName (via all_est.qName)
      oryCun2.estOrientInfo.name (via all_est.qName)
      oryCun2.intronEst.qName (via all_est.qName)
      oryCun2.refGene.name (via all_est.qName)
      oryCun2.refSeqAli.qName (via all_est.qName)
      oryCun2.xenoMrna.qName (via all_est.qName)
      oryCun2.xenoRefGene.name (via all_est.qName)
      oryCun2.xenoRefSeqAli.qName (via all_est.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
18561942000011-AA8758082023199chr11948507571666682261666684232114,82,3,117,166668226,166668341,
124372020011314953-AB0726177230723chr217433231286296889863125645157,219,158,48,140,0,158,377,535,583,86296889,86297046,86303609,86305597,86312424,
7352481391400011-AF1094581204151190chr118755421419728876197300522108,1067,14,122,19728876,19728985,
15084410000000+AF10946048736477chr121553553951210589281210593691441,36,121058928,
8364890000000+AF10946352718507chr1314336083232923347329238361489,18,32923347,
9012842000000+AF2471452893289chr1314336083241508215415085011286,3,41508215,
1017465651001252+AF2549484770477chr1314336083256646273566470022472,5,0,472,56646273,56646997,
11893941000000-AF2471473950395chr1314336083279255256792556511395,0,79255256,
9723343000021204+AF2471483560337chr178500846750769306507708473137,134,66,0,137,271,50769306,50770176,50770781,
111129353700023+AF4696903350335chr17850084676900860069008938318,217,100,0,18,235,69008600,69008619,69008838,

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