Schema for xenoRefSeqAli
  Database: braFlo1    Primary Table: xenoRefSeqAli    Row Count: 395,369   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 3531smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 527int(10) unsigned range Number of bases that match that aren't repeats
misMatches 227int(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 6int(10) unsigned range Number of inserts in query
qBaseInsert 335int(10) unsigned range Number of bases inserted in query
tNumInsert 7int(10) unsigned range Number of inserts in target
tBaseInsert 19981int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_213060varchar(255) values Query sequence name
qSize 2913int(10) unsigned range Query sequence size
qStart 395int(10) unsigned range Alignment start position in query
qEnd 1484int(10) unsigned range Alignment end position in query
tName chrUnvarchar(255) values Target sequence name
tSize 926371504int(10) unsigned range Target sequence size
tStart 386150360int(10) unsigned range Alignment start position in target
tEnd 386171095int(10) unsigned range Alignment end position in target
blockCount 8int(10) unsigned range Number of blocks in alignment
blockSizes 48,108,102,69,70,123,90,144,longblob   Size of each block
qStarts 395,515,677,812,895,971,109...longblob   Start of each block in query.
tStarts 540200409,540211157,5402143...longblob   Start of each block in target.

Connected Tables and Joining Fields
        braFlo1.all_est.qName (via xenoRefSeqAli.qName)
      braFlo1.all_mrna.qName (via xenoRefSeqAli.qName)
      braFlo1.xenoMrna.qName (via xenoRefSeqAli.qName)
      braFlo1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      braFlo1.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
3531527227006335719981+-NM_21306029133951484chrUn926371504386150360386171095848,108,102,69,70,123,90,144,395,515,677,812,895,971,1094,1340,540200409,540211157,540214387,540214972,540215520,540216748,540217936,540221000,
3436833500114120+-NM_1707621966538670chrUn926371504373687539373687677269,49,538,621,552683827,552683916,
585457186038130133++NM_001097928298919842695chrM1508367213862303,378,1984,2317,672,1008,
585360216015257257++NM_126741998141789chrM15083342240703228,78,285,141,396,504,3422,3677,3785,
585247106070000++NM_001171073221518542214chrM15083371040701360,1854,3710,
5856736080000++NM_147270357108219chrM15083417242831111,108,4172,
340955426106428442535++NM_0013089251551851048chrUn9263715043702216123702250265232,194,168,143,142,85,317,583,763,906,370221612,370222617,370223543,370224198,370224884,
336131212000485957146++NM_00130884228061021393chrUn926371504363868177363875755654,60,105,105,21,87,102,156,321,1083,1221,1306,363868177,363868512,363869790,363874920,363875058,363875668,
98631217400388834947++NM_001337142916270208394chrUn92637150452567849525732824129,123,156,78,7020,7278,7608,8316,52567849,52569238,52570291,52573204,
232461190003294671711+-NM_00100332229132501195chrUn926371504167089112167161474782,95,144,129,3,96,102,250,332,466,829,958,961,1093,759210030,759212439,759278008,759280412,759280576,759281701,759282290,

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