Schema for xenoRefSeqAli
  Database: canFam6    Primary Table: xenoRefSeqAli    Row Count: 231,722   Data last updated: 2021-05-18
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 1009int(10) unsigned range Number of bases that match that aren't repeats
misMatches 97int(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 1int(10) unsigned range Number of bases inserted in query
tNumInsert 1int(10) unsigned range Number of inserts in target
tBaseInsert 1int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NR_033384varchar(255) values Query sequence name
qSize 1614int(10) unsigned range Query sequence size
qStart 146int(10) unsigned range Alignment start position in query
qEnd 1253int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 122014068int(10) unsigned range Target sequence size
tStart 29408int(10) unsigned range Alignment start position in target
tEnd 30515int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 338,687,81,longblob   Size of each block
qStarts 146,484,1172,longblob   Start of each block in query.
tStarts 29408,29747,30434,longblob   Start of each block in target.

Connected Tables and Joining Fields
        canFam6.all_est.qName (via xenoRefSeqAli.qName)
      canFam6.all_mrna.qName (via xenoRefSeqAli.qName)
      canFam6.refGene.name (via xenoRefSeqAli.qName)
      canFam6.refSeqAli.qName (via xenoRefSeqAli.qName)
      canFam6.xenoMrna.qName (via xenoRefSeqAli.qName)
      canFam6.xenoRefFlat.name (via xenoRefSeqAli.qName)
      canFam6.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
585100997001111++NR_03338416141461253chr112201406829408305153338,687,81,146,484,1172,29408,29747,30434,
585739272000011++NM_2131541429541065chr112201406829417304292330,681,54,384,29417,29748,
58520184000000++NM_1703871025219504chr112201406829453297381285,219,29453,
58520184000000++NM_170388991185470chr112201406829453297381285,185,29453,
585757242001323++NM_0011986201156841086chr112201406829453304553294,684,21,84,378,1065,29453,29748,30434,
5854232340033033307++NM_00111203616543571317chr112201406829459304234279,249,33,96,357,645,942,1221,29459,29748,30045,30327,
58596184001111++NM_0013155361482831129chr112201406829469305153277,687,81,83,360,1048,29469,29747,30434,
5853482280031743187++NM_00104115010023753chr11220140682947130234484,150,228,114,3,120,288,639,29471,29588,29757,30120,
5854982940021442142++NM_00102219317033411277chr112201406829474304083264,387,141,341,614,1136,29474,29748,30267,
5854192230033033307++NM_12446318794011346chr112201406829474304234264,249,33,96,401,674,971,1250,29474,29748,30045,30327,

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