Schema for all_mrna
  Database: caeRem3    Primary Table: all_mrna    Row Count: 604   Data last updated: 2016-05-28
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 486int(10) unsigned range Number of bases that match that aren't repeats
misMatches 0int(10) unsigned range Number of bases that don't match
repMatches 1int(10) unsigned range Number of bases that match but are part of repeats
nCount 0int(10) unsigned range Number of 'N' bases
qNumInsert 0int(10) unsigned range Number of inserts in query
qBaseInsert 0int(10) unsigned range Number of bases inserted in query
tNumInsert 3int(10) unsigned range Number of inserts in target
tBaseInsert 481int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName EU183220varchar(255) values Query sequence name
qSize 487int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 487int(10) unsigned range Alignment end position in query
tName chrUnvarchar(255) values Target sequence name
tSize 149111736int(10) unsigned range Target sequence size
tStart 9279int(10) unsigned range Alignment start position in target
tEnd 10247int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 45,91,137,214,longblob   Size of each block
qStarts 0,45,136,273,longblob   Start of each block in query.
tStarts 9279,9622,9842,10033,longblob   Start of each block in target.

Connected Tables and Joining Fields
        caeRem3.all_est.qName (via all_mrna.qName)
      caeRem3.mrnaOrientInfo.name (via all_mrna.qName)
      caeRem3.xenoMrna.qName (via all_mrna.qName)
      caeRem3.xenoRefGene.name (via all_mrna.qName)
      caeRem3.xenoRefSeqAli.qName (via all_mrna.qName)
      hgFixed.gbCdnaInfo.acc (via all_mrna.qName)
      hgFixed.gbMiscDiff.acc (via all_mrna.qName)
      hgFixed.gbSeq.acc (via all_mrna.qName)
      hgFixed.gbWarn.acc (via all_mrna.qName)
      hgFixed.imageClone.acc (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585486010003481+EU1832204870487chrUn149111736927910247445,91,137,214,0,45,136,273,9279,9622,9842,10033,
58512850710006659-DQ868895135601356chrUn14911173625763277787366,403,145,109,174,88,71,0,366,769,914,1023,1197,1285,25763,26526,26977,27166,27349,27571,27707,
585118601880006631-DQ868896137401374chrUn14911173630283322887363,397,145,109,183,88,89,0,363,760,905,1014,1197,1285,30283,31017,31462,31651,31833,32062,32199,
586390100003976+EU1655163910391chrUn1491117361359731373404101,96,78,116,0,101,197,275,135973,136123,136294,137224,
586567370001151-DQ0602565792579chrUn1491117362241682248962236,341,0,236,224168,224555,
58792201400006687-DQ115355106201062chrUn149111736293666295415782,136,65,99,228,99,353,0,82,218,283,382,610,709,293666,294107,294289,294401,294547,294913,295062,
58889141800091696+FJ8048379130913chrUn1491117365103135129221061,91,105,117,89,95,84,139,78,54,0,61,152,257,374,463,558,642,781,859,510313,511204,511351,511598,511778,511914,512346,512476,512661,512868,
58889141800091696+FJ8048389130913chrUn1491117365103135129221061,91,105,117,89,95,84,139,78,54,0,61,152,257,374,463,558,642,781,859,510313,511204,511351,511598,511778,511914,512346,512476,512661,512868,
58889141800091696+FJ8048399130913chrUn1491117365103135129221061,91,105,117,89,95,84,139,78,54,0,61,152,257,374,463,558,642,781,859,510313,511204,511351,511598,511778,511914,512346,512476,512661,512868,
58887781600091708+FJ8048409010901chrUn1491117365103135129221061,91,105,117,89,83,84,139,78,54,0,61,152,257,374,463,546,630,769,847,510313,511204,511351,511598,511778,511926,512346,512476,512661,512868,

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