Schema for all_mrna
  Database: oreNil2    Primary Table: all_mrna    Row Count: 1,187   Data last updated: 2020-08-22
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 472int(10) unsigned range Number of bases that match that aren't repeats
misMatches 23int(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 2int(10) unsigned range Number of inserts in query
qBaseInsert 6int(10) unsigned range Number of bases inserted in query
tNumInsert 1int(10) unsigned range Number of inserts in target
tBaseInsert 5int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName KP685367varchar(255) values Query sequence name
qSize 1344int(10) unsigned range Query sequence size
qStart 825int(10) unsigned range Alignment start position in query
qEnd 1326int(10) unsigned range Alignment end position in query
tName AERX01073294-1varchar(255) values Target sequence name
tSize 4887int(10) unsigned range Target sequence size
tStart 1385int(10) unsigned range Alignment start position in target
tEnd 1885int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 204,193,98,longblob   Size of each block
qStarts 825,1034,1228,longblob   Start of each block in query.
tStarts 1385,1594,1787,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)
      oreNil2.all_est.qName (via all_mrna.qName)
      oreNil2.mrnaOrientInfo.name (via all_mrna.qName)
      oreNil2.refGene.name (via all_mrna.qName)
      oreNil2.refSeqAli.qName (via all_mrna.qName)
      oreNil2.xenoRefGene.name (via all_mrna.qName)
      oreNil2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58547223002615+KP68536713448251326AERX01073294-14887138518853204,193,98,825,1034,1228,1385,1594,1787,
58565423003164863+KP68536815488251518AERX01073294-14887138529256204,48,135,188,67,35,825,1034,1092,1227,1415,1483,1385,1594,2081,2623,2823,2890,
58547223002615+KP68536713448251326AERX01073295-14887138518853204,193,98,825,1034,1228,1385,1594,1787,
58565423003164863+KP68536815488251518AERX01073295-14887138529256204,48,135,188,67,35,825,1034,1092,1227,1415,1483,1385,1594,2081,2623,2823,2890,
585298071002269-GQ355864570264570AERX01075077-21873129818733134,87,85,0,134,221,1298,1571,1788,
58533112100000+GQ3868003530353AERX01076407-213202586111353,0,258,
58533202100000+GQ3868013530353AERX01076407-213202586111353,0,258,
58533122000000+GQ3868023530353AERX01076407-213202586111353,0,258,
58533032000000+GQ3868033530353AERX01076407-213202586111353,0,258,
58533122000000+GQ3868043530353AERX01076407-213202586111353,0,258,

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