Schema for xenoRefSeqAli
  Database: sorAra1    Primary Table: xenoRefSeqAli    Row Count: 799,185   Data last updated: 2020-09-01
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 232int(10) unsigned Number of bases that match that aren't repeats
misMatches 89int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 1int(10) unsigned Number of inserts in query
qBaseInsert 222int(10) unsigned Number of bases inserted in query
tNumInsert 1int(10) unsigned Number of inserts in target
tBaseInsert 222int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName NM_205016varchar(255) Query sequence name
qSize 626int(10) unsigned Query sequence size
qStart 20int(10) unsigned Alignment start position in query
qEnd 563int(10) unsigned Alignment end position in query
tName scaffold_0varchar(255) Target sequence name
tSize 7726int(10) unsigned Target sequence size
tStart 6129int(10) unsigned Alignment start position in target
tEnd 6672int(10) unsigned Alignment end position in target
blockCount 2int(10) unsigned Number of blocks in alignment
blockSizes 231,90,longblob Size of each block
qStarts 20,473,longblob Start of each block in query.
tStarts 6129,6582,longblob Start of each block in target.

Connected Tables and Joining Fields
        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)
      sorAra1.all_mrna.qName (via xenoRefSeqAli.qName)
      sorAra1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      sorAra1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585232890012221222++NM_20501662620563scaffold_07726612966722231,90,20,473,6129,6582,
58534918500133133++NM_00103252070913580scaffold_07726612966962231,303,13,277,6129,6393,
5853941340260000++NM_001096409151530584scaffold_07726613066841554,30,6130,
5853581560260000++NM_0010865323755108648scaffold_07726613266721540,108,6132,
58528815900133133++NM_00103261782733513scaffold_07726613566152222,225,33,288,6135,6390,
585231840012221222++NM_0010027541706121658scaffold_07726613566722225,90,121,568,6135,6582,
58533516900133133++NM_001011285180151588scaffold_07726613566722225,279,51,309,6135,6393,
58528616100390390++NM_00103383672613550scaffold_07726613566724126,69,114,138,13,169,271,412,6135,6291,6393,6534,
5853691420260000++NM_001037195124795632scaffold_07726613566721537,95,6135,
585220950012221222++NM_001100242116983620scaffold_07726613566722225,90,83,530,6135,6582,

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