Schema for xenoRefSeqAli
  Database: nasLar1    Primary Table: xenoRefSeqAli    Row Count: 387,633   Data last updated: 2020-08-19
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 127int(10) unsigned range Number of bases that match that aren't repeats
misMatches 23int(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 0int(10) unsigned range Number of inserts in query
qBaseInsert 0int(10) unsigned range Number of bases inserted in query
tNumInsert 0int(10) unsigned range Number of inserts in target
tBaseInsert 0int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001104865varchar(255) values Query sequence name
qSize 681int(10) unsigned range Query sequence size
qStart 300int(10) unsigned range Alignment start position in query
qEnd 450int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 215897965int(10) unsigned range Target sequence size
tStart 24776int(10) unsigned range Alignment start position in target
tEnd 24926int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 150,longblob   Size of each block
qStarts 300,longblob   Start of each block in query.
tStarts 215873039,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)
      nasLar1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      nasLar1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58512723000000+-NM_001104865681300450chr121589796524776249261150,300,215873039,
58512330000000+-NM_001113526849444597chr121589796524776249291153,444,215873036,
585214380011081123+-NM_0011083631504366726chr12158979652477625151299,153,366,573,215872814,215873036,
58833522001156746398+-NM_00125689622812962220chr12158979654309034376585124,76,46,78,33,296,420,496,2109,2187,215460307,215464147,215464227,215466949,215467029,
8986013230011629254040+-NM_02469137428313384chr317979000641096358411513223114,780,30,831,945,3354,138638684,138638966,138693618,
58841365001200315114+-NM_001130062242852730chr12158979654336924492844236,120,76,46,52,488,608,684,215448681,215460311,215464147,215464227,
58825894001204111398+-NM_001044372150996652chr12158979654375344492842234,118,96,534,215448681,215460313,
140730462500011458195+-NM_00132398437721043445chr61705880181077587511077622421777,113,44,269,294,423,167,282,452,168,147,253,114,36,334,36,87,104,193,314,358,628,925,1353,1526,1811,2263,2431,2579,2833,2947,2983,3321,3358,62825776,62825853,62825966,62826011,62826280,62826574,62826997,62827167,62827454,62828045,62828247,62828394,62828647,62828763,62 ...
5885625600215039745+-NM_001207029226813752143chr12158979654712894816524184,142,140,152,1375,1561,1703,1991,215416313,215417666,215418073,215426524,
5885699800212349718+-NM_001031815205911571947chr12158979654712894816745206,142,142,27,150,1157,1365,1507,1770,1797,215416291,215417666,215418073,215425556,215426526,

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