Schema for xenoMrna
  Database: gorGor3    Primary Table: xenoMrna    Row Count: 9,170,819   Data last updated: 2020-08-21
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 104int(10) unsigned Number of bases that match that aren't repeats
misMatches 23int(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 0int(10) unsigned Number of inserts in query
qBaseInsert 0int(10) unsigned Number of bases inserted in query
tNumInsert 0int(10) unsigned Number of inserts in target
tBaseInsert 0int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName AB232641varchar(255) Query sequence name
qSize 600int(10) unsigned Query sequence size
qStart 396int(10) unsigned Alignment start position in query
qEnd 523int(10) unsigned Alignment end position in query
tName CABD02410918varchar(255) Target sequence name
tSize 4508int(10) unsigned Target sequence size
tStart 4329int(10) unsigned Alignment start position in target
tEnd 4456int(10) unsigned Alignment end position in target
blockCount 1int(10) unsigned Number of blocks in alignment
blockSizes 127,longblob Size of each block
qStarts 396,longblob Start of each block in query.
tStarts 52,longblob Start of each block in target.

Connected Tables and Joining Fields
        gorGor3.all_mrna.qName (via xenoMrna.qName)
      gorGor3.xenoRefFlat.name (via xenoMrna.qName)
      gorGor3.xenoRefGene.name (via xenoMrna.qName)
      gorGor3.xenoRefSeqAli.qName (via xenoMrna.qName)
      hgFixed.gbCdnaInfo.acc (via xenoMrna.qName)
      hgFixed.gbMiscDiff.acc (via xenoMrna.qName)
      hgFixed.gbSeq.acc (via xenoMrna.qName)
      hgFixed.gbWarn.acc (via xenoMrna.qName)
      hgFixed.imageClone.acc (via xenoMrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58510423000000+-AB232641600396523CABD024109184508432944561127,396,52,
58510818000000+-JI866677466316442CABD024109184508433044561126,316,52,
58559160000148++EZ55062828095170CABD02410924272621622285255,20,95,150,2162,2265,
5856710000181++AY498718321068CABD02411146121510661215224,44,0,24,1066,1171,
585639000000+-DQ786310316779CABD024113451187622694172,7,493,
5851006500001252+-JI115302559100265CABD0241145959514431265,100,100,165,164,481,
585803700001297+-JI467279348126243CABD0241145959517431253,64,126,179,164,514,
5857434001141281++HP864349448291413CABD0241145959546435221,87,291,326,46,348,
585885000001261+-JI46727934890228CABD0241145959547446272,66,90,162,149,482,
5851247100002312+-JI32226111668251020CABD0241145959547554376,71,48,825,901,972,41,147,500,

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