Schema for all_est
  Database: hg19    Primary Table: all_est    Row Count: 9,238,188   Data last updated: 2019-09-20
Format description: Summary info about a patSpace alignment
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 468int(10) unsigned Number of bases that match that aren't repeats
misMatches 10int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 1int(10) unsigned Number of 'N' bases
qNumInsert 2int(10) unsigned Number of inserts in query
qBaseInsert 89int(10) unsigned Number of bases inserted in query
tNumInsert 3int(10) unsigned Number of inserts in target
tBaseInsert 158int(10) unsigned Number of bases inserted in target
strand +char(2) + or - for strand. First character query, second target (optional)
qName AA853941varchar(255) Query sequence name
qSize 605int(10) unsigned Query sequence size
qStart 1int(10) unsigned Alignment start position in query
qEnd 569int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 249250621int(10) unsigned Target sequence size
tStart 14403int(10) unsigned Alignment start position in target
tEnd 15040int(10) unsigned Alignment end position in target
blockCount 5int(10) unsigned Number of blocks in alignment
blockSizes 52,55,16,285,71,longblob Size of each block
qStarts 1,58,197,213,498,longblob Start of each block in query.
tStarts 14403,14455,14527,14544,14969,longblob Start of each block in target.

Connected Tables and Joining Fields
        hg19.all_mrna.qName (via all_est.qName)
      hg19.estOrientInfo.name (via all_est.qName)
      hg19.intronEst.qName (via all_est.qName)
      hg19.refGene.name (via all_est.qName)
      hg19.refSeqAli.qName (via all_est.qName)
      hg19.xenoEst.qName (via all_est.qName)
      hg19.xenoMrna.qName (via all_est.qName)
      hg19.xenoRefGene.name (via all_est.qName)
      hg19.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
58546810012893158+AA8539416051569chr12492506211440315040552,55,16,285,71,1,58,197,213,498,14403,14455,14527,14544,14969,
5851870000000-AA4115421870187chr124925062114405145921187,0,14405,
5852586041211-AA3215322700270chr12492506211450914778289,179,0,91,14509,14599,
585324700004899-AA5525813376337chr124925062114654158845129,45,69,50,38,0,129,174,243,293,14654,14784,14969,15795,15846,
585276205223973-AA37887729913298chr12492506211579917055612,7,12,5,60,187,1,13,21,34,39,99,15799,15820,15827,15839,15845,16868,
5853193000000+AA8435803264326chr124925062116441167631322,4,16441,
5854124000021199+AA9345834226422chr124925062116441180563188,86,142,6,194,280,16441,17656,17914,
585412100004267-AA2784124130413chr124925062116618172985150,52,11,134,66,0,150,202,213,347,16618,16856,16909,16921,17232,
5854708000057629-AA4341494813481chr12492506211669624803642,92,32,147,99,66,0,42,134,166,313,412,16696,17617,17710,17914,18267,24737,
5859500000394-AA29182695095chr12492506211674516934420,53,13,9,0,20,73,86,16745,16857,16911,16925,

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