Schema for all_est
  Database: galGal2    Primary Table: all_est    Row Count: 587,026   Data last updated: 2020-05-08
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 336int(10) unsigned Number of bases that match that aren't repeats
misMatches 9int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 1int(10) unsigned Number of inserts in query
qBaseInsert 1int(10) unsigned Number of bases inserted in query
tNumInsert 1int(10) unsigned Number of inserts in target
tBaseInsert 1int(10) unsigned Number of bases inserted in target
strand -char(2) + or - for strand. First character query, second target (optional)
qName CD727395varchar(255) Query sequence name
qSize 346int(10) unsigned Query sequence size
qStart 0int(10) unsigned Alignment start position in query
qEnd 346int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 188239860int(10) unsigned Target sequence size
tStart 17411int(10) unsigned Alignment start position in target
tEnd 17757int(10) unsigned Alignment end position in target
blockCount 3int(10) unsigned Number of blocks in alignment
blockSizes 113,196,36,longblob Size of each block
qStarts 0,113,310,longblob Start of each block in query.
tStarts 17411,17525,17721,longblob Start of each block in target.

Connected Tables and Joining Fields
        galGal2.all_mrna.qName (via all_est.qName)
      galGal2.est.qName (via all_est.qName)
      galGal2.estOrientInfo.name (via all_est.qName)
      galGal2.intronEst.qName (via all_est.qName)
      galGal2.refGene.name (via all_est.qName)
      galGal2.refSeqAli.qName (via all_est.qName)
      galGal2.xenoMrna.qName (via all_est.qName)
      galGal2.xenoRefGene.name (via all_est.qName)
      galGal2.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
5853369001111-CD7273953460346chr118823986017411177573113,196,36,0,113,310,17411,17525,17721,
5855471001031917-BQ0381685910586chr118823986017664182384125,131,88,223,5,144,279,368,17664,17796,17927,18015,
5859719690516821-DR4199881345761141chr118823986021939230091211,6,16,7,17,33,36,156,214,66,50,437,204,216,222,238,251,274,308,344,500,714,780,832,21939,21950,21957,21974,21986,22008,22041,22078,22235,22455,22522,22572,
585770363033616-BU4269188440839chr11882398602194822800930,6,98,33,82,12,298,259,18,5,36,42,140,174,256,269,567,826,21948,21980,21987,22088,22121,22211,22223,22522,22782,
585731405416619+CN7781927660756chr11882398602195722716921,219,9,21,214,66,50,82,58,0,26,247,256,277,491,557,610,698,21957,21984,22203,22213,22235,22455,22522,22572,22658,
585744363011717-BU3038228110811chr11882398602196422791924,77,12,120,13,297,91,167,9,0,24,101,113,233,247,544,635,802,21964,21989,22067,22083,22211,22224,22522,22614,22782,
5856511240011841077-BU3296517960787chr118823986021990227701617,14,26,19,5,15,17,14,12,7,29,214,66,25,25,198,9,35,50,77,104,110,134,165,213,229,236,265,479,545,571,598,21990,22017,22031,22057,22085,22090,22111,22141,22182,22197,22205,22235,22455,22522,22547,22572,
585489370055411-CF2569695681568chr11882398602199522568897,119,22,22,5,187,63,47,0,98,217,239,262,268,456,520,21995,22092,22212,22235,22257,22262,22456,22521,
585557263022210-BU2992236480624chr118823986022030226624167,21,294,140,24,192,214,508,22030,22206,22227,22522,
585538356037621-BU4725686073607chr11882398602204422662817,17,84,5,20,20,294,140,0,17,34,118,124,148,170,464,22044,22062,22082,22167,22174,22207,22227,22522,

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