Schema for xenoRefSeqAli
  Database: turTru2    Primary Table: xenoRefSeqAli    Row Count: 583,163   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 73smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 1518int(10) unsigned Number of bases that match that aren't repeats
misMatches 281int(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 13int(10) unsigned Number of inserts in query
qBaseInsert 2140int(10) unsigned Number of bases inserted in query
tNumInsert 15int(10) unsigned Number of inserts in target
tBaseInsert 114008int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName NM_001199540varchar(255) Query sequence name
qSize 6786int(10) unsigned Query sequence size
qStart 2847int(10) unsigned Alignment start position in query
qEnd 6786int(10) unsigned Alignment end position in query
tName JH473069varchar(255) Target sequence name
tSize 329601int(10) unsigned Target sequence size
tStart 54224int(10) unsigned Alignment start position in target
tEnd 170031int(10) unsigned Alignment end position in target
blockCount 19int(10) unsigned Number of blocks in alignment
blockSizes 184,37,81,35,61,23,112,148,...longblob Size of each block
qStarts 2847,3031,3090,3174,3209,32...longblob Start of each block in query.
tStarts 54224,56284,56322,56403,612...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)
      turTru2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      turTru2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
7315182810013214015114008++NM_001199540678628476786JH4730693296015422417003119184,37,81,35,61,23,112,148,246,108,45,18,41,52,47,97,50,88,326,2847,3031,3090,3174,3209,3291,3338,3450,3741,4428,4753,4831,4852,4893,4945,4997,5166,6327,6460,54224,56284,56322,56403,61253,61314,61337,61897,167217,167754,168051,168119,168156,168209,168263,168316,168481,169572,169705,
58511114000000++NM_0011459371095826322757ABRN020002836394115361125,2632,411,
58511114000000++NM_0118571097826592784ABRN020002836394115361125,2659,411,
5855727000000+-NR_076852269922532337JH481854692041281012894184,2253,56310,
5859870301600++NM_00116393525971142ABRN02000351228101452104,31,1,111,10,114,
5852131020031473333516+-NM_001018230413918193607JH47713510551254245880764108,99,60,48,1819,1984,2146,3559,17436,18897,20165,51219,
585157860023422165+-NM_0798191542411996JH4739102298197441774825381,141,21,411,588,975,154994,155171,155381,
5852314900222605++NM_00108678473938961178ABRN0200038994820905553,126,36,32,33,896,949,1075,1112,1145,20,586,804,840,872,
5852384200222605++NM_20097675419641246ABRN0200038994820905553,126,36,32,33,964,1017,1143,1180,1213,20,586,804,840,872,
586883800193124877+-NM_1190961539447666JH474879227703140223165226260,66,447,600,62477,87414,

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