Schema for xenoRefSeqAli
  Database: dipOrd1    Primary Table: xenoRefSeqAli    Row Count: 666,567   Data last updated: 2020-08-21
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 90int(10) unsigned Number of bases that match that aren't repeats
misMatches 11int(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 0int(10) unsigned Number of inserts in query
qBaseInsert 0int(10) unsigned Number of bases inserted in query
tNumInsert 5int(10) unsigned Number of inserts in target
tBaseInsert 353196int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_001017498varchar(255) Query sequence name
qSize 2686int(10) unsigned Query sequence size
qStart 2163int(10) unsigned Alignment start position in query
qEnd 2264int(10) unsigned Alignment end position in query
tName scaffold_0varchar(255) Target sequence name
tSize 11421927int(10) unsigned Target sequence size
tStart 44875int(10) unsigned Alignment start position in target
tEnd 398172int(10) unsigned Alignment end position in target
blockCount 6int(10) unsigned Number of blocks in alignment
blockSizes 26,9,21,3,12,30,longblob Size of each block
qStarts 2163,2189,2198,2219,2222,2234,longblob Start of each block in query.
tStarts 11023755,11023929,11273085,...longblob Start of each block in target.

Connected Tables and Joining Fields
        dipOrd1.all_mrna.qName (via xenoRefSeqAli.qName)
      dipOrd1.xenoMrna.qName (via xenoRefSeqAli.qName)
      dipOrd1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      dipOrd1.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
73901100005353196+-NM_001017498268621632264scaffold_01142192744875398172626,9,21,3,12,30,2163,2189,2198,2219,2222,2234,11023755,11023929,11273085,11273148,11273251,11377022,
5857412002109212853+-NR_002728916717888479079scaffold_01142192794313107252336,15,35,78884,79011,79044,11314675,11326335,11327579,
734321240052036271617+-NM_0011068531553197956scaffold_011421927124830397003775,108,66,51,132,70,54,197,305,443,550,602,734,902,11024924,11025023,11276358,11276775,11294700,11295151,11297043,
7389280012091268701++NM_008983617750875413scaffold_011421927297749566567293,24,5087,5389,297749,566543,
5853972000213246510++NM_0013499804505406955scaffold_3768414823729014217524,78,103,66,146,406,433,511,614,809,7290,7316,8634,12280,14071,
588762800198147+-NM_175592350212214scaffold_011421927399604399755355,13,36,12,165,178,11022172,11022227,11022287,
588863300198147+-NM_0011740475539186403scaffold_011421927399604399770370,13,36,186,354,367,11022157,11022227,11022287,
588863300198147+-NM_0011740485521186403scaffold_011421927399604399770370,13,36,186,354,367,11022157,11022227,11022287,
588863300198147+-NM_0011740495512186403scaffold_011421927399604399770370,13,36,186,354,367,11022157,11022227,11022287,
588863300198147+-NM_0011740505515186403scaffold_011421927399604399770370,13,36,186,354,367,11022157,11022227,11022287,

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