Schema for xenoRefSeqAli
  Database: strPur2    Primary Table: xenoRefSeqAli    Row Count: 210,668   Data last updated: 2020-09-01
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 73smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 77int(10) unsigned range Number of bases that match that aren't repeats
misMatches 5int(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 334int(10) unsigned range Number of bases inserted in query
tNumInsert 3int(10) unsigned range Number of inserts in target
tBaseInsert 288748int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_008091varchar(255) values Query sequence name
qSize 3257int(10) unsigned range Query sequence size
qStart 2439int(10) unsigned range Alignment start position in query
qEnd 2855int(10) unsigned range Alignment end position in query
tName Scaffold1varchar(255) values Target sequence name
tSize 640699int(10) unsigned range Target sequence size
tStart 92208int(10) unsigned range Alignment start position in target
tEnd 381038int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 24,10,24,24,longblob   Size of each block
qStarts 2439,2463,2473,2831,longblob   Start of each block in query.
tStarts 259661,314538,530505,548467,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)
      strPur2.all_est.qName (via xenoRefSeqAli.qName)
      strPur2.all_mrna.qName (via xenoRefSeqAli.qName)
      strPur2.refGene.name (via xenoRefSeqAli.qName)
      strPur2.refSeqAli.qName (via xenoRefSeqAli.qName)
      strPur2.xenoMrna.qName (via xenoRefSeqAli.qName)
      strPur2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      strPur2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
737750013343288748+-NM_008091325724392855Scaffold164069992208381038424,10,24,24,2439,2463,2473,2831,259661,314538,530505,548467,
58514796000000+-NM_001007133832121364Scaffold16406991213681216111243,121,519088,
58514796000000+-NM_001291934967121364Scaffold16406991213681216111243,121,519088,
58525413300334233413++NM_00128718823765131242Scaffold903616627104648464177,45,96,69,513,816,888,1173,1046,2967,3039,4777,
58510653000000+-NM_001366993720323482Scaffold16406991214161215751159,323,519124,
585328173001167337141+-NM_0013669771473312980Scaffold3057911446413176508184138,201,111,51,312,450,651,929,63646,77683,78913,101237,
585328173001167337141+-NM_00136697521049431611Scaffold3057911446413176508184138,201,111,51,943,1081,1282,1560,63646,77683,78913,101237,
585328173001167337141+-NM_0013669761469312980Scaffold3057911446413176508184138,201,111,51,312,450,651,929,63646,77683,78913,101237,
5854992300061629831838+-NM_00136699039828453203Scaffold255375275336107903960,51,117,81,87,42,97,14,180,845,1325,1376,1649,1796,2318,2606,2703,3023,445849,453026,453937,466233,467196,471310,474108,474858,478236,
58510146000000+-NM_001281830665101248Scaffold16406991214251215721147,101,519127,

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