Schema for xenoMrna
  Database: caeRem3    Primary Table: xenoMrna    Row Count: 2,791,876   Data last updated: 2020-08-18
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 590int(10) unsigned Number of bases that match that aren't repeats
misMatches 231int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 25int(10) unsigned Number of 'N' bases
qNumInsert 3int(10) unsigned Number of inserts in query
qBaseInsert 126int(10) unsigned Number of bases inserted in query
tNumInsert 4int(10) unsigned Number of inserts in target
tBaseInsert 777int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName AB078971varchar(255) Query sequence name
qSize 1540int(10) unsigned Query sequence size
qStart 29int(10) unsigned Alignment start position in query
qEnd 1001int(10) unsigned Alignment end position in query
tName chrUnvarchar(255) Target sequence name
tSize 149111736int(10) unsigned Target sequence size
tStart 9012int(10) unsigned Alignment start position in target
tEnd 10635int(10) unsigned Alignment end position in target
blockCount 5int(10) unsigned Number of blocks in alignment
blockSizes 147,86,121,351,141,longblob Size of each block
qStarts 29,266,352,479,860,longblob Start of each block in query.
tStarts 9012,9625,9840,10036,10494,longblob Start of each block in target.

Connected Tables and Joining Fields
        caeRem3.all_est.qName (via xenoMrna.qName)
      caeRem3.all_mrna.qName (via xenoMrna.qName)
      caeRem3.xenoRefFlat.name (via xenoMrna.qName)
      caeRem3.xenoRefGene.name (via xenoMrna.qName)
      caeRem3.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
58559023102531264777++AB0789711540291001chrUn1491117369012106355147,86,121,351,141,29,266,352,479,860,9012,9625,9840,10036,10494,
5859499707125641++AF500489136451060chrUn1491117369029107236133,84,91,138,402,205,5,138,222,313,453,855,9029,9240,9622,9842,10036,10518,
58558321702531264777++EU9274509660951chrUn1491117369033106355126,86,121,351,141,0,216,302,429,810,9033,9625,9840,10036,10494,
5859479507125641++AY09544723809752026chrUn1491117369033107236129,84,91,138,402,205,975,1104,1188,1279,1419,1821,9033,9240,9622,9842,10036,10518,
731298300001193587+-AY18887943850262chrUn149111736297322235312181,31,50,231,148888205,149081973,
73205112001152193651+-AY18888052918350chrUn149111736297322237003105,181,31,18,138,319,148888036,148888205,149081973,
5851204500386431153+-FM207805260511030chrUn1491117366128262600442,39,42,42,1,256,346,988,149049136,149049501,149049603,149050412,
585133710016154+-HP39746139163273chrUn14911173662624628822147,57,63,216,149048854,149049055,
58522110600162257++HP517495147829362chrUn1491117366262563209357,159,111,29,92,251,62625,62736,63098,
58522110600162257++HP558533370720312364chrUn1491117366262563209357,159,111,2031,2094,2253,62625,62736,63098,

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