Schema for xenoMrna
  Database: galGal3    Primary Table: xenoMrna    Row Count: 4,617,291   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 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 163int(10) unsigned Number of bases that match that aren't repeats
misMatches 38int(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 1int(10) unsigned Number of inserts in query
qBaseInsert 21int(10) unsigned Number of bases inserted in query
tNumInsert 2int(10) unsigned Number of inserts in target
tBaseInsert 1114int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName AB055969varchar(255) Query sequence name
qSize 763int(10) unsigned Query sequence size
qStart 421int(10) unsigned Alignment start position in query
qEnd 643int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 200994015int(10) unsigned Target sequence size
tStart 28075int(10) unsigned Alignment start position in target
tEnd 29390int(10) unsigned Alignment end position in target
blockCount 3int(10) unsigned Number of blocks in alignment
blockSizes 21,52,128,longblob Size of each block
qStarts 421,463,515,longblob Start of each block in query.
tStarts 200964625,200964664,200965812,longblob Start of each block in target.

Connected Tables and Joining Fields
        galGal3.all_est.qName (via xenoMrna.qName)
      galGal3.all_mrna.qName (via xenoMrna.qName)
      galGal3.refGene.name (via xenoMrna.qName)
      galGal3.refSeqAli.qName (via xenoMrna.qName)
      galGal3.xenoRefFlat.name (via xenoMrna.qName)
      galGal3.xenoRefGene.name (via xenoMrna.qName)
      galGal3.xenoRefSeqAli.qName (via xenoMrna.qName)
      hgFixed.gbCdnaInfo.acc (via xenoMrna.qName)
      hgFixed.gbMiscDiff.acc (via xenoMrna.qName)
      hgFixed.gbSeq.acc (via xenoMrna.qName)
      hgFixed.gbWarn.acc (via xenoMrna.qName)
      hgFixed.imageClone.acc (via xenoMrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585163380012121114+-AB055969763421643chr12009940152807529390321,52,128,421,463,515,200964625,200964664,200965812,
5851313400112711150+-CR6818841100417709chr12009940152807529390221,144,417,565,200964625,200965796,
585120300017211165+-CR682495913277499chr12009940152807529390221,129,277,370,200964625,200965811,
585170420011221105+-AB4698971169460684chr12009940152807529392323,61,128,460,495,556,200964623,200964655,200965812,
5859144000011096+-AY850385597336471chr120099401528171294022103,32,336,439,200964613,200965812,
585169740028421645++BC1574191051109436chr12009940153520337091366,87,90,109,223,346,35203,36157,37001,
5855132160062358616145++AK30043736351063193chr12009940153520352077763,117,144,78,12,198,117,106,880,1063,1789,2012,2764,3076,35203,42356,45260,50700,51379,51648,51960,
5859694230093411917183++BC0653014961314834chr120099401535203537781063,117,144,78,12,198,117,234,147,282,31,682,865,1591,1814,2566,2878,3412,4360,4552,35203,42356,45260,50700,51379,51648,51960,52461,53304,53496,
5852385973002264612227595++AB371588111981059924chr120099401535203661562363,117,144,78,12,198,117,234,147,282,174,213,306,321,351,144,69,37,57,84,39,33,138,105,879,1062,1788,2011,2763,3075,3609,4557,4749,6408,6681,7131,7485,8076,8562,8736,8811,9024,9201,9393,9462,9786,35203,42356,45260,50700,51379,51648,51960,52461,53304,53496,53913,54186,55690,56044,56635,57160,57334,59370,60821,61835,63191,63 ...
5852387971002264742227595++D2554210295879919chr120099401535203661562363,117,144,78,12,198,117,234,147,282,174,213,306,321,351,144,69,37,57,84,39,33,138,87,889,1072,1798,2021,2773,3085,3619,4567,4759,6418,6691,7141,7495,8086,8572,8746,8821,9034,9211,9403,9457,9781,35203,42356,45260,50700,51379,51648,51960,52461,53304,53496,53913,54186,55690,56044,56635,57160,57334,59370,60821,61835,63191,63 ...

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