Schema for all_mrna
  Database: sacCer2    Primary Table: all_mrna    Row Count: 1,659   Data last updated: 2020-09-01
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 1272int(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 0int(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 0int(10) unsigned range Number of inserts in target
tBaseInsert 0int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName MN049160varchar(255) values Query sequence name
qSize 1312int(10) unsigned range Query sequence size
qStart 21int(10) unsigned range Alignment start position in query
qEnd 1293int(10) unsigned range Alignment end position in query
tName 2micronvarchar(255) values Target sequence name
tSize 6318int(10) unsigned range Target sequence size
tStart 250int(10) unsigned range Alignment start position in target
tEnd 1522int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 1272,longblob   Size of each block
qStarts 21,longblob   Start of each block in query.
tStarts 250,longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      sacCer2.all_est.qName (via all_mrna.qName)
      sacCer2.mrnaOrientInfo.name (via all_mrna.qName)
      sacCer2.xenoRefGene.name (via all_mrna.qName)
      sacCer2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58512720000000+MN04916013122112932micron6318250152211272,21,250,
58511230000000-MN04916211622211452micron63181885300811123,17,1885,
5855450000000+MN049161586225672micron6318327038151545,22,3270,
5858890000000-MN049163931229112micron6318530961981889,20,5309,
58539680000000-MN0478224009223990chrI230208240012796913968,19,24001,
58531413000000+MN0478213184213165chrI230208485635170713144,21,48563,
5855110000000-MN04781955322533chrI23020857952584631511,20,57952,
58528735004736+E00249288502885chrI2302087087873762777,53,545,1375,11,495,322,0,78,132,678,2053,2064,2563,70878,70955,71008,71553,72929,72942,73440,
58511460001100-MN0478181180221169chrI230208833298447525,1141,11,17,83329,83334,
585356000001113+MN04781739420376chrI23020887284877532104,252,20,124,87284,87501,

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