Schema for all_mrna
  Database: ornAna2    Primary Table: all_mrna    Row Count: 335   Data last updated: 2018-03-25
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 10smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 496int(10) unsigned range Number of bases that match that aren't repeats
misMatches 4int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 365int(10) unsigned range Number of bases inserted in query
tNumInsert 4int(10) unsigned range Number of inserts in target
tBaseInsert 447683int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName JQ350810varchar(255) values Query sequence name
qSize 945int(10) unsigned range Query sequence size
qStart 80int(10) unsigned range Alignment start position in query
qEnd 945int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 47594283int(10) unsigned range Target sequence size
tStart 15718757int(10) unsigned range Alignment start position in target
tEnd 16166940int(10) unsigned range Alignment end position in target
blockCount 5int(10) unsigned range Number of blocks in alignment
blockSizes 25,53,149,118,155,longblob   Size of each block
qStarts 80,105,523,672,790,longblob   Start of each block in query.
tStarts 15718757,15718783,16161032,...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)
      ornAna2.all_est.qName (via all_mrna.qName)
      ornAna2.mrnaOrientInfo.name (via all_mrna.qName)
      ornAna2.refGene.name (via all_mrna.qName)
      ornAna2.refSeqAli.qName (via all_mrna.qName)
      ornAna2.xenoRefGene.name (via all_mrna.qName)
      ornAna2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
1049640013654447683+JQ35081094580945chr1475942831571875716166940525,53,149,118,155,80,105,523,672,790,15718757,15718783,16161032,16164086,16166785,
59318093000024352+JQ350818181201812chr1011243762116750811736723954,90,768,0,954,1044,1167508,1169859,1172904,
6241180000000-FZ4271941180118chr1011243762517503551751531118,0,5175035,
6241210000000-FZ4271961210121chr1011243762517542651755471121,0,5175426,
6181230000000-FZ4272371230123chr116809224444198244421051123,0,4441982,
1006890000011-JQ350811127211831272chr3595819535519799555198085213,76,0,13,55197995,55198009,
75239116001152101+AF3812995211423chr45898726221975713219762213115,101,191,1,116,232,21975713,21975917,21976030,
75238814001203107+AF3813105451423chr4589872622197571521976224451,61,101,189,1,52,113,234,21975715,21975767,21975917,21976035,
752394120000293+AF3813244720406chr45898726221992969219934683101,2,303,0,101,103,21992969,21993143,21993165,
752394120000293+AY05577816190406chr45898726221992969219934683101,2,303,0,101,103,21992969,21993143,21993165,

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