Schema for all_est
  Database: ci2    Primary Table: all_est    Row Count: 1,171,079   Data last updated: 2016-05-25
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 603smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 344int(10) unsigned Number of bases that match that aren't repeats
misMatches 7int(10) unsigned Number of bases that don't match
repMatches 5int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 0int(10) unsigned Number of inserts in query
qBaseInsert 0int(10) unsigned Number of bases inserted in query
tNumInsert 4int(10) unsigned Number of inserts in target
tBaseInsert 1314int(10) unsigned Number of bases inserted in target
strand +char(2) + or - for strand. First character query, second target (optional)
qName AB091080varchar(255) Query sequence name
qSize 356int(10) unsigned Query sequence size
qStart 0int(10) unsigned Alignment start position in query
qEnd 356int(10) unsigned Alignment end position in query
tName chr03pvarchar(255) Target sequence name
tSize 4544431int(10) unsigned Target sequence size
tStart 2411584int(10) unsigned Alignment start position in target
tEnd 2413254int(10) unsigned Alignment end position in target
blockCount 5int(10) unsigned Number of blocks in alignment
blockSizes 117,69,127,38,5,longblob Size of each block
qStarts 0,117,186,313,351,longblob Start of each block in query.
tStarts 2411584,2411840,2412196,241...longblob Start of each block in target.

Connected Tables and Joining Fields
        ci2.all_mrna.qName (via all_est.qName)
      ci2.estOrientInfo.name (via all_est.qName)
      ci2.intronEst.qName (via all_est.qName)
      ci2.refGene.name (via all_est.qName)
      ci2.refSeqAli.qName (via all_est.qName)
      ci2.xenoMrna.qName (via all_est.qName)
      ci2.xenoRefGene.name (via all_est.qName)
      ci2.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
6033447500041314+AB0910803560356chr03p4544431241158424132545117,69,127,38,5,0,117,186,313,351,2411584,2411840,2412196,2412857,2413249,
60442513001141384+AB0910824390439chr04q677639726047102606532673,40,71,120,94,40,0,73,114,185,305,399,2604710,2604965,2605005,2605520,2606075,2606492,
592395200113599+AB0910873980398chr05q621563810050761006072545,41,80,158,73,0,45,87,167,325,1005076,1005718,1005759,1005840,1005999,
6284162000000+AB0910854180418chr05q6215638563993656403541418,0,5639936,
59847431800021028+AB0910814950495chr10p1849531173466417361873139,174,182,0,139,313,1734664,1735533,1736005,
5864143001100-AB09108347658476scaffold_1971546121366461370632367,50,0,368,136646,137013,
585188212200000-AB0910843120312scaffold_23977475609764091312,0,6097,
590324000221371+AB0910863260326scaffold_3610681147022587029534233,33,23,35,0,233,267,291,702258,702862,702895,702918,
586127617400011-AJ4951283070307chr01p62201121527311530392120,187,0,120,152731,152852,
5872129002331201-AJ4945782270224chr01p6220112283182284604556,56,5,53,51,3,61,117,123,176,283182,283791,283848,283853,284553,

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