Schema for all_est
  Database: rn4    Primary Table: all_est    Row Count: 1,120,926   Data last updated: 2016-05-26
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 595smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 316int(10) unsigned Number of bases that match that aren't repeats
misMatches 5int(10) unsigned Number of bases that don't match
repMatches 69int(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 2int(10) unsigned Number of inserts in target
tBaseInsert 2int(10) unsigned Number of bases inserted in target
strand +char(2) + or - for strand. First character query, second target (optional)
qName AA964125varchar(255) Query sequence name
qSize 391int(10) unsigned Query sequence size
qStart 0int(10) unsigned Alignment start position in query
qEnd 391int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 267910886int(10) unsigned Target sequence size
tStart 1399705int(10) unsigned Alignment start position in target
tEnd 1400097int(10) unsigned Alignment end position in target
blockCount 4int(10) unsigned Number of blocks in alignment
blockSizes 134,71,163,22,longblob Size of each block
qStarts 0,134,205,369,longblob Start of each block in query.
tStarts 1399705,1399840,1399912,140...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)
      rn4.all_mrna.qName (via all_est.qName)
      rn4.est.qName (via all_est.qName)
      rn4.estOrientInfo.name (via all_est.qName)
      rn4.intronEst.qName (via all_est.qName)
      rn4.refGene.name (via all_est.qName)
      rn4.refSeqAli.qName (via all_est.qName)
      rn4.xenoMrna.qName (via all_est.qName)
      rn4.xenoRefGene.name (via all_est.qName)
      rn4.xenoRefSeqAli.qName (via all_est.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
59531656901122+AA9641253910391chr1267910886139970514000974134,71,163,22,0,134,205,369,1399705,1399840,1399912,1400075,
59731836901100-AA9641253910391chr126791088616972661697656224,366,0,25,1697266,1697290,
6013846001111+AA9641253910391chr1267910886212087421212653134,234,22,0,134,369,2120874,2121009,2121243,
60230233200000-AA8516943370337chr1267910886223758122379181337,0,2237581,
60231717015500+AA6860473940394chr1267910886228352922839186303,42,10,25,4,5,0,304,347,358,384,389,2283529,2283832,2283874,2283884,2283909,2283913,
60233600000169+AA6854773415341chr1267910886228362522840302331,5,5,336,2283625,2284025,
6025820000000-AA9436655820582chr1267910886228374522843271582,0,2283745,
6022410001100+AA6852452420242chr1267910886228377522840162192,49,0,193,2283775,2283967,
6022540010000-AA6856002550255chr1267910886228407222843271255,0,2284072,
60241510011900+AA99857845015450chr1267910886228649622869122151,265,15,185,2286496,2286647,

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