Schema for xenoRefSeqAli
  Database: cerSim1    Primary Table: xenoRefSeqAli    Row Count: 306,893   Data last updated: 2020-08-18
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 727smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 2487int(10) unsigned range Number of bases that match that aren't repeats
misMatches 216int(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 30int(10) unsigned range Number of 'N' bases
qNumInsert 4int(10) unsigned range Number of inserts in query
qBaseInsert 82int(10) unsigned range Number of bases inserted in query
tNumInsert 9int(10) unsigned range Number of inserts in target
tBaseInsert 8191int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001378393varchar(255) values Query sequence name
qSize 2818int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 2815int(10) unsigned range Alignment end position in query
tName JH767760varchar(255) values Target sequence name
tSize 22940773int(10) unsigned range Target sequence size
tStart 18627171int(10) unsigned range Alignment start position in target
tEnd 18638095int(10) unsigned range Alignment end position in target
blockCount 11int(10) unsigned range Number of blocks in alignment
blockSizes 106,58,1898,78,19,37,26,204...longblob   Size of each block
qStarts 0,106,164,2062,2142,2168,22...longblob   Start of each block in query.
tStarts 4302678,4310091,4310929,431...longblob   Start of each block in target.

Connected Tables and Joining Fields
        cerSim1.all_mrna.qName (via xenoRefSeqAli.qName)
      cerSim1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      cerSim1.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbSeq.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)
      hgFixed.imageClone.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
727248721603048298191+-NM_001378393281802815JH76776022940773186271711863809511106,58,1898,78,19,37,26,204,30,116,161,0,106,164,2062,2142,2168,2207,2233,2437,2538,2654,4302678,4310091,4310929,4312828,4312906,4312934,4312974,4313001,4313220,4313324,4313441,
5855101440000125325+-NM_00110173598247701AKZM01053786886441743277222565,89,47,612,60922,86812,
5855061480000125325+-NM_00112340195924678AKZM01053786886441743277222565,89,24,589,60922,86812,
585485126000000+-NM_001168275107351662AKZM0105378688644175823691611,51,86275,
585485126000000+-NM_001168279117133644AKZM0105378688644175823691611,33,86275,
585498104000000+-NM_00124593663212614AKZM0105378688644176723691602,12,86275,
5854476400118325359+-NM_0011663225312531AKZM0105378688644177127641436,302,114,59,2,56,358,472,61003,61059,61376,86814,
585477860000115+-NM_00113023257310573AKZM0105378688644177623542396,167,10,406,86290,86701,
585471117000000+-NM_0010317655880588AKZM0105378688644177623641588,0,86280,
58539899004115491+-NM_0010481596120612AKZM0105378688644177623645229,66,75,13,114,0,237,333,453,498,86280,86514,86610,86709,86754,

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