Schema for all_est
  Database: xenTro10    Primary Table: all_est    Row Count: 1,355,113   Data last updated: 2021-03-24
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 275int(10) unsigned Number of bases that match that aren't repeats
misMatches 6int(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 4int(10) unsigned Number of bases inserted in query
tNumInsert 4int(10) unsigned Number of inserts in target
tBaseInsert 1444int(10) unsigned Number of bases inserted in target
strand +char(2) + or - for strand. First character query, second target (optional)
qName AL642220varchar(255) Query sequence name
qSize 293int(10) unsigned Query sequence size
qStart 8int(10) unsigned Alignment start position in query
qEnd 293int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 217471166int(10) unsigned Target sequence size
tStart 112504int(10) unsigned Alignment start position in target
tEnd 114229int(10) unsigned Alignment end position in target
blockCount 5int(10) unsigned Number of blocks in alignment
blockSizes 13,36,15,165,52,longblob Size of each block
qStarts 8,21,57,76,241,longblob Start of each block in query.
tStarts 112504,112628,113549,113565...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)
      xenTro10.all_mrna.qName (via all_est.qName)
      xenTro10.estOrientInfo.name (via all_est.qName)
      xenTro10.intronEst.qName (via all_est.qName)
      xenTro10.refGene.name (via all_est.qName)
      xenTro10.refSeqAli.qName (via all_est.qName)
      xenTro10.xenoRefGene.name (via all_est.qName)
      xenTro10.xenoRefSeqAli.qName (via all_est.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
5852756001441444+AL6422202938293chr1217471166112504114229513,36,15,165,52,8,21,57,76,241,112504,112628,113549,113565,114177,
5851852000011-AL6407271870187chr1217471166130024130212279,108,0,79,130024,130104,
58554430032900-AL6817205760576chr1217471166130131130678422,29,89,407,0,48,78,169,130131,130153,130182,130271,
586327000001317+AL88587437025352chr12174711662008642015082201,126,25,226,200864,201382,
5866460010043724-AL6366716514651chr12174711662009212052925144,124,147,210,22,0,144,268,415,625,200921,201382,203466,205059,205270,
5866270000033723-AL8643186369636chr12174711662009392052894126,124,147,230,0,126,250,397,200939,201382,203466,205059,
5866170000033723-AL86557863215632chr12174711662009522052924113,124,147,233,0,113,237,384,200952,201382,203466,205059,
5866150000033723-AL85374062914629chr12174711662009542052924111,124,147,233,0,111,235,382,200954,201382,203466,205059,
5866473001146169-AL6583476510651chr12174711662009542077735111,124,147,229,39,0,111,235,382,612,200954,201382,203466,205059,207734,
5865920000033723-AL7887505920592chr1217471166200969205284496,124,147,225,0,96,220,367,200969,201382,203466,205059,

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